@colin4k1024/tsp 2.4.0

package/skills/continuous-learning-v2/scripts/instinct-cli.py

@@ -0,0 +1,1477 @@
+#!/usr/bin/env python3
+"""
+Instinct CLI - Manage instincts for Continuous Learning v2
+
+v2.1: Project-scoped instincts — different projects get different instincts,
+      with global instincts applied universally.
+
+Commands:
+  status   - Show all instincts (project + global) and their status
+  import   - Import instincts from file or URL
+  export   - Export instincts to file
+  evolve   - Cluster instincts into skills/commands/agents
+  promote  - Promote project instincts to global scope
+  projects - List all known projects and their instinct counts
+  prune    - Delete pending instincts older than 30 days (TTL)
+"""
+
+import argparse
+import json
+import hashlib
+import os
+import subprocess
+import sys
+import re
+import urllib.request
+from pathlib import Path
+from datetime import datetime, timedelta, timezone
+from collections import defaultdict
+from typing import Optional
+
+try:
+    import fcntl
+    _HAS_FCNTL = True
+except ImportError:
+    _HAS_FCNTL = False  # Windows — skip file locking
+
+# ─────────────────────────────────────────────
+# Configuration
+# ─────────────────────────────────────────────
+
+HOMUNCULUS_DIR = Path.home() / ".claude" / "homunculus"
+PROJECTS_DIR = HOMUNCULUS_DIR / "projects"
+REGISTRY_FILE = HOMUNCULUS_DIR / "projects.json"
+
+# Global (non-project-scoped) paths
+GLOBAL_INSTINCTS_DIR = HOMUNCULUS_DIR / "instincts"
+GLOBAL_PERSONAL_DIR = GLOBAL_INSTINCTS_DIR / "personal"
+GLOBAL_INHERITED_DIR = GLOBAL_INSTINCTS_DIR / "inherited"
+GLOBAL_EVOLVED_DIR = HOMUNCULUS_DIR / "evolved"
+GLOBAL_OBSERVATIONS_FILE = HOMUNCULUS_DIR / "observations.jsonl"
+
+# Thresholds for auto-promotion
+PROMOTE_CONFIDENCE_THRESHOLD = 0.8
+PROMOTE_MIN_PROJECTS = 2
+ALLOWED_INSTINCT_EXTENSIONS = (".yaml", ".yml", ".md")
+
+# Default TTL for pending instincts (days)
+PENDING_TTL_DAYS = 30
+# Warning threshold: show expiry warning when instinct expires within this many days
+PENDING_EXPIRY_WARNING_DAYS = 7
+
+# Ensure global directories exist (deferred to avoid side effects at import time)
+def _ensure_global_dirs():
+    for d in [GLOBAL_PERSONAL_DIR, GLOBAL_INHERITED_DIR,
+              GLOBAL_EVOLVED_DIR / "skills", GLOBAL_EVOLVED_DIR / "commands", GLOBAL_EVOLVED_DIR / "agents",
+              PROJECTS_DIR]:
+        d.mkdir(parents=True, exist_ok=True)
+
+
+# ─────────────────────────────────────────────
+# Path Validation
+# ─────────────────────────────────────────────
+
+def _validate_file_path(path_str: str, must_exist: bool = False) -> Path:
+    """Validate and resolve a file path, guarding against path traversal.
+
+    Raises ValueError if the path is invalid or suspicious.
+    """
+    path = Path(path_str).expanduser().resolve()
+
+    # Block paths that escape into system directories
+    # We block specific system paths but allow temp dirs (/var/folders on macOS)
+    blocked_prefixes = [
+        "/etc", "/usr", "/bin", "/sbin", "/proc", "/sys",
+        "/var/log", "/var/run", "/var/lib", "/var/spool",
+        # macOS resolves /etc → /private/etc
+        "/private/etc",
+        "/private/var/log", "/private/var/run", "/private/var/db",
+    ]
+    path_s = str(path)
+    for prefix in blocked_prefixes:
+        if path_s.startswith(prefix + "/") or path_s == prefix:
+            raise ValueError(f"Path '{path}' targets a system directory")
+
+    if must_exist and not path.exists():
+        raise ValueError(f"Path does not exist: {path}")
+
+    return path
+
+
+def _validate_instinct_id(instinct_id: str) -> bool:
+    """Validate instinct IDs before using them in filenames."""
+    if not instinct_id or len(instinct_id) > 128:
+        return False
+    if "/" in instinct_id or "\\" in instinct_id:
+        return False
+    if ".." in instinct_id:
+        return False
+    if instinct_id.startswith("."):
+        return False
+    return bool(re.match(r"^[A-Za-z0-9][A-Za-z0-9._-]*$", instinct_id))
+
+
+def _yaml_quote(value: str) -> str:
+    """Quote a string for safe YAML frontmatter serialization.
+
+    Uses double quotes and escapes embedded double-quote characters to
+    prevent malformed YAML when the value contains quotes.
+    """
+    escaped = value.replace('\\', '\\\\').replace('"', '\\"')
+    return f'"{escaped}"'
+
+
+# ─────────────────────────────────────────────
+# Project Detection (Python equivalent of detect-project.sh)
+# ─────────────────────────────────────────────
+
+def detect_project() -> dict:
+    """Detect current project context. Returns dict with id, name, root, project_dir."""
+    project_root = None
+
+    # 1. CLAUDE_PROJECT_DIR env var
+    env_dir = os.environ.get("CLAUDE_PROJECT_DIR")
+    if env_dir and os.path.isdir(env_dir):
+        project_root = env_dir
+
+    # 2. git repo root
+    if not project_root:
+        try:
+            result = subprocess.run(
+                ["git", "rev-parse", "--show-toplevel"],
+                capture_output=True, text=True, timeout=5
+            )
+            if result.returncode == 0:
+                project_root = result.stdout.strip()
+        except (subprocess.TimeoutExpired, FileNotFoundError):
+            pass
+
+    # Normalize: strip trailing slashes to keep basename and hash stable
+    if project_root:
+        project_root = project_root.rstrip("/")
+
+    # 3. No project — global fallback
+    if not project_root:
+        return {
+            "id": "global",
+            "name": "global",
+            "root": "",
+            "project_dir": HOMUNCULUS_DIR,
+            "instincts_personal": GLOBAL_PERSONAL_DIR,
+            "instincts_inherited": GLOBAL_INHERITED_DIR,
+            "evolved_dir": GLOBAL_EVOLVED_DIR,
+            "observations_file": GLOBAL_OBSERVATIONS_FILE,
+        }
+
+    project_name = os.path.basename(project_root)
+
+    # Derive project ID from git remote URL or path
+    remote_url = ""
+    try:
+        result = subprocess.run(
+            ["git", "-C", project_root, "remote", "get-url", "origin"],
+            capture_output=True, text=True, timeout=5
+        )
+        if result.returncode == 0:
+            remote_url = result.stdout.strip()
+    except (subprocess.TimeoutExpired, FileNotFoundError):
+        pass
+
+    hash_source = remote_url if remote_url else project_root
+    project_id = hashlib.sha256(hash_source.encode()).hexdigest()[:12]
+
+    project_dir = PROJECTS_DIR / project_id
+
+    # Ensure project directory structure
+    for d in [
+        project_dir / "instincts" / "personal",
+        project_dir / "instincts" / "inherited",
+        project_dir / "observations.archive",
+        project_dir / "evolved" / "skills",
+        project_dir / "evolved" / "commands",
+        project_dir / "evolved" / "agents",
+    ]:
+        d.mkdir(parents=True, exist_ok=True)
+
+    # Update registry
+    _update_registry(project_id, project_name, project_root, remote_url)
+
+    return {
+        "id": project_id,
+        "name": project_name,
+        "root": project_root,
+        "remote": remote_url,
+        "project_dir": project_dir,
+        "instincts_personal": project_dir / "instincts" / "personal",
+        "instincts_inherited": project_dir / "instincts" / "inherited",
+        "evolved_dir": project_dir / "evolved",
+        "observations_file": project_dir / "observations.jsonl",
+    }
+
+
+def _update_registry(pid: str, pname: str, proot: str, premote: str) -> None:
+    """Update the projects.json registry.
+
+    Uses file locking (where available) to prevent concurrent sessions from
+    overwriting each other's updates.
+    """
+    REGISTRY_FILE.parent.mkdir(parents=True, exist_ok=True)
+    lock_path = REGISTRY_FILE.parent / f".{REGISTRY_FILE.name}.lock"
+    lock_fd = None
+
+    try:
+        # Acquire advisory lock to serialize read-modify-write
+        if _HAS_FCNTL:
+            lock_fd = open(lock_path, "w")
+            fcntl.flock(lock_fd, fcntl.LOCK_EX)
+
+        try:
+            with open(REGISTRY_FILE, encoding="utf-8") as f:
+                registry = json.load(f)
+        except (FileNotFoundError, json.JSONDecodeError):
+            registry = {}
+
+        registry[pid] = {
+            "name": pname,
+            "root": proot,
+            "remote": premote,
+            "last_seen": datetime.now(timezone.utc).isoformat().replace("+00:00", "Z"),
+        }
+
+        tmp_file = REGISTRY_FILE.parent / f".{REGISTRY_FILE.name}.tmp.{os.getpid()}"
+        with open(tmp_file, "w", encoding="utf-8") as f:
+            json.dump(registry, f, indent=2)
+            f.flush()
+            os.fsync(f.fileno())
+        os.replace(tmp_file, REGISTRY_FILE)
+    finally:
+        if lock_fd is not None:
+            fcntl.flock(lock_fd, fcntl.LOCK_UN)
+            lock_fd.close()
+
+
+def load_registry() -> dict:
+    """Load the projects registry."""
+    try:
+        with open(REGISTRY_FILE, encoding="utf-8") as f:
+            return json.load(f)
+    except (FileNotFoundError, json.JSONDecodeError):
+        return {}
+
+
+# ─────────────────────────────────────────────
+# Instinct Parser
+# ─────────────────────────────────────────────
+
+def parse_instinct_file(content: str) -> list[dict]:
+    """Parse YAML-like instinct file format.
+
+    Each instinct is delimited by a pair of ``---`` markers (YAML frontmatter).
+    Note: ``---`` is always treated as a frontmatter boundary; instinct body
+    content must use ``***`` or ``___`` for horizontal rules to avoid ambiguity.
+    """
+    instincts = []
+    current = {}
+    in_frontmatter = False
+    content_lines = []
+
+    for line in content.split('\n'):
+        if line.strip() == '---':
+            if in_frontmatter:
+                # End of frontmatter - content comes next
+                in_frontmatter = False
+            else:
+                # Start of new frontmatter block
+                in_frontmatter = True
+                if current:
+                    current['content'] = '\n'.join(content_lines).strip()
+                    instincts.append(current)
+                current = {}
+                content_lines = []
+        elif in_frontmatter:
+            # Parse YAML-like frontmatter
+            if ':' in line:
+                key, value = line.split(':', 1)
+                key = key.strip()
+                value = value.strip()
+                # Unescape quoted YAML strings
+                if value.startswith('"') and value.endswith('"'):
+                    value = value[1:-1].replace('\\"', '"').replace('\\\\', '\\')
+                elif value.startswith("'") and value.endswith("'"):
+                    value = value[1:-1].replace("''", "'")
+                if key == 'confidence':
+                    try:
+                        current[key] = float(value)
+                    except ValueError:
+                        current[key] = 0.5  # default on malformed confidence
+                else:
+                    current[key] = value
+        else:
+            content_lines.append(line)
+
+    # Don't forget the last instinct
+    if current:
+        current['content'] = '\n'.join(content_lines).strip()
+        instincts.append(current)
+
+    return [i for i in instincts if i.get('id')]
+
+
+def _load_instincts_from_dir(directory: Path, source_type: str, scope_label: str) -> list[dict]:
+    """Load instincts from a single directory."""
+    instincts = []
+    if not directory.exists():
+        return instincts
+    files = [
+        file for file in sorted(directory.iterdir())
+        if file.is_file() and file.suffix.lower() in ALLOWED_INSTINCT_EXTENSIONS
+    ]
+    for file in files:
+        try:
+            content = file.read_text(encoding="utf-8")
+            parsed = parse_instinct_file(content)
+            for inst in parsed:
+                inst['_source_file'] = str(file)
+                inst['_source_type'] = source_type
+                inst['_scope_label'] = scope_label
+                # Default scope if not set in frontmatter
+                if 'scope' not in inst:
+                    inst['scope'] = scope_label
+            instincts.extend(parsed)
+        except Exception as e:
+            print(f"Warning: Failed to parse {file}: {e}", file=sys.stderr)
+    return instincts
+
+
+def load_all_instincts(project: dict, include_global: bool = True) -> list[dict]:
+    """Load all instincts: project-scoped + global.
+
+    Project-scoped instincts take precedence over global ones when IDs conflict.
+    """
+    instincts = []
+
+    # 1. Load project-scoped instincts (if not already global)
+    if project["id"] != "global":
+        instincts.extend(_load_instincts_from_dir(
+            project["instincts_personal"], "personal", "project"
+        ))
+        instincts.extend(_load_instincts_from_dir(
+            project["instincts_inherited"], "inherited", "project"
+        ))
+
+    # 2. Load global instincts
+    if include_global:
+        global_instincts = []
+        global_instincts.extend(_load_instincts_from_dir(
+            GLOBAL_PERSONAL_DIR, "personal", "global"
+        ))
+        global_instincts.extend(_load_instincts_from_dir(
+            GLOBAL_INHERITED_DIR, "inherited", "global"
+        ))
+
+        # Deduplicate: project-scoped wins over global when same ID
+        project_ids = {i.get('id') for i in instincts}
+        for gi in global_instincts:
+            if gi.get('id') not in project_ids:
+                instincts.append(gi)
+
+    return instincts
+
+
+def load_project_only_instincts(project: dict) -> list[dict]:
+    """Load only project-scoped instincts (no global).
+
+    In global fallback mode (no git project), returns global instincts.
+    """
+    if project.get("id") == "global":
+        instincts = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+        instincts += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+        return instincts
+    return load_all_instincts(project, include_global=False)
+
+
+# ─────────────────────────────────────────────
+# Status Command
+# ─────────────────────────────────────────────
+
+def cmd_status(args) -> int:
+    """Show status of all instincts (project + global)."""
+    project = detect_project()
+    instincts = load_all_instincts(project)
+
+    if not instincts:
+        print("No instincts found.")
+        print(f"\nProject: {project['name']} ({project['id']})")
+        print(f"  Project instincts:  {project['instincts_personal']}")
+        print(f"  Global instincts:   {GLOBAL_PERSONAL_DIR}")
+    else:
+        # Split by scope
+        project_instincts = [i for i in instincts if i.get('_scope_label') == 'project']
+        global_instincts = [i for i in instincts if i.get('_scope_label') == 'global']
+
+        # Print header
+        print(f"\n{'='*60}")
+        print(f"  INSTINCT STATUS - {len(instincts)} total")
+        print(f"{'='*60}\n")
+
+        print(f"  Project:  {project['name']} ({project['id']})")
+        print(f"  Project instincts: {len(project_instincts)}")
+        print(f"  Global instincts:  {len(global_instincts)}")
+        print()
+
+        # Print project-scoped instincts
+        if project_instincts:
+            print(f"## PROJECT-SCOPED ({project['name']})")
+            print()
+            _print_instincts_by_domain(project_instincts)
+
+        # Print global instincts
+        if global_instincts:
+            print("## GLOBAL (apply to all projects)")
+            print()
+            _print_instincts_by_domain(global_instincts)
+
+        # Observations stats
+        obs_file = project.get("observations_file")
+        if obs_file and Path(obs_file).exists():
+            with open(obs_file, encoding="utf-8") as f:
+                obs_count = sum(1 for _ in f)
+            print(f"-" * 60)
+            print(f"  Observations: {obs_count} events logged")
+            print(f"  File: {obs_file}")
+
+    # Pending instinct stats
+    pending = _collect_pending_instincts()
+    if pending:
+        print(f"\n{'-'*60}")
+        print(f"  Pending instincts: {len(pending)} awaiting review")
+
+        if len(pending) >= 5:
+            print(f"\n  \u26a0 {len(pending)} pending instincts awaiting review."
+                  f" Unreviewed instincts auto-delete after {PENDING_TTL_DAYS} days.")
+
+        # Show instincts expiring within PENDING_EXPIRY_WARNING_DAYS
+        expiry_threshold = PENDING_TTL_DAYS - PENDING_EXPIRY_WARNING_DAYS
+        expiring_soon = [p for p in pending
+                         if p["age_days"] >= expiry_threshold and p["age_days"] < PENDING_TTL_DAYS]
+        if expiring_soon:
+            print(f"\n  Expiring within {PENDING_EXPIRY_WARNING_DAYS} days:")
+            for item in expiring_soon:
+                days_left = max(0, PENDING_TTL_DAYS - item["age_days"])
+                print(f"    - {item['name']} ({days_left}d remaining)")
+
+    print(f"\n{'='*60}\n")
+    return 0
+
+
+def _print_instincts_by_domain(instincts: list[dict]) -> None:
+    """Helper to print instincts grouped by domain."""
+    by_domain = defaultdict(list)
+    for inst in instincts:
+        domain = inst.get('domain', 'general')
+        by_domain[domain].append(inst)
+
+    for domain in sorted(by_domain.keys()):
+        domain_instincts = by_domain[domain]
+        print(f"  ### {domain.upper()} ({len(domain_instincts)})")
+        print()
+
+        for inst in sorted(domain_instincts, key=lambda x: -x.get('confidence', 0.5)):
+            conf = inst.get('confidence', 0.5)
+            conf_bar = '\u2588' * int(conf * 10) + '\u2591' * (10 - int(conf * 10))
+            trigger = inst.get('trigger', 'unknown trigger')
+            scope_tag = f"[{inst.get('scope', '?')}]"
+
+            print(f"    {conf_bar} {int(conf*100):3d}%  {inst.get('id', 'unnamed')} {scope_tag}")
+            print(f"              trigger: {trigger}")
+
+            # Extract action from content
+            content = inst.get('content', '')
+            action_match = re.search(r'## Action\s*\n\s*(.+?)(?:\n\n|\n##|$)', content, re.DOTALL)
+            if action_match:
+                action = action_match.group(1).strip().split('\n')[0]
+                print(f"              action: {action[:60]}{'...' if len(action) > 60 else ''}")
+
+            print()
+
+
+# ─────────────────────────────────────────────
+# Import Command
+# ─────────────────────────────────────────────
+
+def cmd_import(args) -> int:
+    """Import instincts from file or URL."""
+    project = detect_project()
+    source = args.source
+
+    # Determine target scope
+    target_scope = args.scope or "project"
+    if target_scope == "project" and project["id"] == "global":
+        print("No project detected. Importing as global scope.")
+        target_scope = "global"
+
+    # Fetch content
+    if source.startswith('http://') or source.startswith('https://'):
+        print(f"Fetching from URL: {source}")
+        try:
+            with urllib.request.urlopen(source) as response:
+                content = response.read().decode('utf-8')
+        except Exception as e:
+            print(f"Error fetching URL: {e}", file=sys.stderr)
+            return 1
+    else:
+        try:
+            path = _validate_file_path(source, must_exist=True)
+        except ValueError as e:
+            print(f"Invalid path: {e}", file=sys.stderr)
+            return 1
+        if not path.is_file():
+            print(f"Error: '{path}' is not a regular file.", file=sys.stderr)
+            return 1
+        content = path.read_text(encoding="utf-8")
+
+    # Parse instincts
+    new_instincts = parse_instinct_file(content)
+    if not new_instincts:
+        print("No valid instincts found in source.")
+        return 1
+
+    print(f"\nFound {len(new_instincts)} instincts to import.")
+    print(f"Target scope: {target_scope}")
+    if target_scope == "project":
+        print(f"Target project: {project['name']} ({project['id']})")
+    print()
+
+    # Load existing instincts for dedup, scoped to the target to avoid
+    # cross-scope shadowing (project instincts hiding global ones or vice versa)
+    if target_scope == "global":
+        existing = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+        existing += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+    else:
+        existing = load_project_only_instincts(project)
+    existing_ids = {i.get('id') for i in existing}
+
+    # Deduplicate within the import source: keep highest confidence per ID
+    best_by_id = {}
+    for inst in new_instincts:
+        inst_id = inst.get('id')
+        if inst_id not in best_by_id or inst.get('confidence', 0.5) > best_by_id[inst_id].get('confidence', 0.5):
+            best_by_id[inst_id] = inst
+    deduped_instincts = list(best_by_id.values())
+
+    # Categorize against existing instincts on disk
+    to_add = []
+    duplicates = []
+    to_update = []
+
+    for inst in deduped_instincts:
+        inst_id = inst.get('id')
+        if inst_id in existing_ids:
+            existing_inst = next((e for e in existing if e.get('id') == inst_id), None)
+            if existing_inst:
+                if inst.get('confidence', 0) > existing_inst.get('confidence', 0):
+                    to_update.append(inst)
+                else:
+                    duplicates.append(inst)
+        else:
+            to_add.append(inst)
+
+    # Filter by minimum confidence
+    min_conf = args.min_confidence if args.min_confidence is not None else 0.0
+    to_add = [i for i in to_add if i.get('confidence', 0.5) >= min_conf]
+    to_update = [i for i in to_update if i.get('confidence', 0.5) >= min_conf]
+
+    # Display summary
+    if to_add:
+        print(f"NEW ({len(to_add)}):")
+        for inst in to_add:
+            print(f"  + {inst.get('id')} (confidence: {inst.get('confidence', 0.5):.2f})")
+
+    if to_update:
+        print(f"\nUPDATE ({len(to_update)}):")
+        for inst in to_update:
+            print(f"  ~ {inst.get('id')} (confidence: {inst.get('confidence', 0.5):.2f})")
+
+    if duplicates:
+        print(f"\nSKIP ({len(duplicates)} - already exists with equal/higher confidence):")
+        for inst in duplicates[:5]:
+            print(f"  - {inst.get('id')}")
+        if len(duplicates) > 5:
+            print(f"  ... and {len(duplicates) - 5} more")
+
+    if args.dry_run:
+        print("\n[DRY RUN] No changes made.")
+        return 0
+
+    if not to_add and not to_update:
+        print("\nNothing to import.")
+        return 0
+
+    # Confirm
+    if not args.force:
+        response = input(f"\nImport {len(to_add)} new, update {len(to_update)}? [y/N] ")
+        if response.lower() != 'y':
+            print("Cancelled.")
+            return 0
+
+    # Determine output directory based on scope
+    if target_scope == "global":
+        output_dir = GLOBAL_INHERITED_DIR
+    else:
+        output_dir = project["instincts_inherited"]
+
+    output_dir.mkdir(parents=True, exist_ok=True)
+
+    # Collect stale files for instincts being updated (deleted after new file is written).
+    # Allow deletion from any subdirectory (personal/ or inherited/) within the
+    # target scope to prevent the same ID existing in both places. Guard against
+    # cross-scope deletion by restricting to the scope's instincts root.
+    if target_scope == "global":
+        scope_root = GLOBAL_INSTINCTS_DIR.resolve()
+    else:
+        scope_root = (project["project_dir"] / "instincts").resolve() if project["id"] != "global" else GLOBAL_INSTINCTS_DIR.resolve()
+    stale_paths = []
+    for inst in to_update:
+        inst_id = inst.get('id')
+        stale = next((e for e in existing if e.get('id') == inst_id), None)
+        if stale and stale.get('_source_file'):
+            stale_path = Path(stale['_source_file']).resolve()
+            if stale_path.exists() and str(stale_path).startswith(str(scope_root) + os.sep):
+                stale_paths.append(stale_path)
+
+    # Write new file first (safe: if this fails, stale files are preserved)
+    timestamp = datetime.now().strftime('%Y%m%d-%H%M%S')
+    source_name = Path(source).stem if not source.startswith('http') else 'web-import'
+    output_file = output_dir / f"{source_name}-{timestamp}.yaml"
+
+    all_to_write = to_add + to_update
+    output_content = f"# Imported from {source}\n# Date: {datetime.now().isoformat()}\n# Scope: {target_scope}\n"
+    if target_scope == "project":
+        output_content += f"# Project: {project['name']} ({project['id']})\n"
+    output_content += "\n"
+
+    for inst in all_to_write:
+        output_content += "---\n"
+        output_content += f"id: {inst.get('id')}\n"
+        output_content += f"trigger: {_yaml_quote(inst.get('trigger', 'unknown'))}\n"
+        output_content += f"confidence: {inst.get('confidence', 0.5)}\n"
+        output_content += f"domain: {inst.get('domain', 'general')}\n"
+        output_content += "source: inherited\n"
+        output_content += f"scope: {target_scope}\n"
+        output_content += f"imported_from: {_yaml_quote(source)}\n"
+        if target_scope == "project":
+            output_content += f"project_id: {project['id']}\n"
+            output_content += f"project_name: {project['name']}\n"
+        if inst.get('source_repo'):
+            output_content += f"source_repo: {inst.get('source_repo')}\n"
+        output_content += "---\n\n"
+        output_content += inst.get('content', '') + "\n\n"
+
+    output_file.write_text(output_content, encoding="utf-8")
+
+    # Remove stale files only after the new file has been written successfully
+    for stale_path in stale_paths:
+        try:
+            stale_path.unlink()
+        except OSError:
+            pass  # best-effort removal
+
+    print(f"\nImport complete!")
+    print(f"   Scope: {target_scope}")
+    print(f"   Added: {len(to_add)}")
+    print(f"   Updated: {len(to_update)}")
+    print(f"   Saved to: {output_file}")
+
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Export Command
+# ─────────────────────────────────────────────
+
+def cmd_export(args) -> int:
+    """Export instincts to file."""
+    project = detect_project()
+
+    # Determine what to export based on scope filter
+    if args.scope == "project":
+        instincts = load_project_only_instincts(project)
+    elif args.scope == "global":
+        instincts = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+        instincts += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+    else:
+        instincts = load_all_instincts(project)
+
+    if not instincts:
+        print("No instincts to export.")
+        return 1
+
+    # Filter by domain if specified
+    if args.domain:
+        instincts = [i for i in instincts if i.get('domain') == args.domain]
+
+    # Filter by minimum confidence
+    if args.min_confidence:
+        instincts = [i for i in instincts if i.get('confidence', 0.5) >= args.min_confidence]
+
+    if not instincts:
+        print("No instincts match the criteria.")
+        return 1
+
+    # Generate output
+    output = f"# Instincts export\n# Date: {datetime.now().isoformat()}\n# Total: {len(instincts)}\n"
+    if args.scope:
+        output += f"# Scope: {args.scope}\n"
+    if project["id"] != "global":
+        output += f"# Project: {project['name']} ({project['id']})\n"
+    output += "\n"
+
+    for inst in instincts:
+        output += "---\n"
+        for key in ['id', 'trigger', 'confidence', 'domain', 'source', 'scope',
+                     'project_id', 'project_name', 'source_repo']:
+            if inst.get(key):
+                value = inst[key]
+                if key == 'trigger':
+                    output += f'{key}: {_yaml_quote(value)}\n'
+                else:
+                    output += f"{key}: {value}\n"
+        output += "---\n\n"
+        output += inst.get('content', '') + "\n\n"
+
+    # Write to file or stdout
+    if args.output:
+        try:
+            out_path = _validate_file_path(args.output)
+        except ValueError as e:
+            print(f"Invalid output path: {e}", file=sys.stderr)
+            return 1
+        if out_path.is_dir():
+            print(f"Error: '{out_path}' is a directory, not a file.", file=sys.stderr)
+            return 1
+        out_path.parent.mkdir(parents=True, exist_ok=True)
+        out_path.write_text(output, encoding="utf-8")
+        print(f"Exported {len(instincts)} instincts to {out_path}")
+    else:
+        print(output)
+
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Evolve Command
+# ─────────────────────────────────────────────
+
+def _load_genes_as_instincts() -> list[dict]:
+    """Load promoted genes from evolution store and convert to instinct-compatible dicts."""
+    genes_path = Path.home() / ".claude" / "evolution" / "genes.json"
+    if not genes_path.exists():
+        return []
+    try:
+        genes = json.loads(genes_path.read_text("utf-8"))
+    except (json.JSONDecodeError, OSError):
+        return []
+    results = []
+    for gene in genes:
+        if gene.get("state") != "promoted":
+            continue
+        signals = gene.get("signals", [])
+        strategy = gene.get("strategy", {})
+        trigger = ""
+        if signals and signals[0].get("pattern"):
+            trigger = signals[0]["pattern"]
+        elif isinstance(strategy, dict):
+            desc = strategy.get("description", "")
+            trigger = desc[:80] if isinstance(desc, str) else str(desc)[:80]
+        tags = gene.get("tags", [])
+        domain = tags[0] if tags else "general"
+        body = ""
+        if isinstance(strategy, dict):
+            body = strategy.get("description", "")
+            if isinstance(body, dict):
+                body = body.get("description", str(body))
+        results.append({
+            "id": gene.get("gene_id", ""),
+            "trigger": trigger,
+            "confidence": gene.get("confidence", 0.5),
+            "domain": domain,
+            "source": "evolution",
+            "scope": "global",
+            "_scope_label": "global",
+            "_from_gene": True,
+            "body": str(body)[:500],
+        })
+    return results
+
+
+def cmd_evolve(args) -> int:
+    """Analyze instincts and suggest evolutions to skills/commands/agents."""
+    project = detect_project()
+    instincts = load_all_instincts(project)
+    instinct_count = len(instincts)
+
+    # Also load promoted genes from evolution store
+    gene_instincts = _load_genes_as_instincts()
+    # Deduplicate: skip genes whose id already exists in instincts
+    existing_ids = {i.get("id") for i in instincts}
+    gene_instincts = [g for g in gene_instincts if g.get("id") not in existing_ids]
+    gene_count = len(gene_instincts)
+    instincts.extend(gene_instincts)
+
+    if len(instincts) < 3:
+        print("Need at least 3 items (instincts + genes) to analyze patterns.")
+        print(f"Currently have: {instinct_count} instincts + {gene_count} genes = {len(instincts)} total")
+        return 1
+
+    project_instincts = [i for i in instincts if i.get('_scope_label') == 'project']
+    global_instincts = [i for i in instincts if i.get('_scope_label') == 'global']
+
+    print(f"\n{'='*60}")
+    print(f"  EVOLVE ANALYSIS - {len(instincts)} items ({instinct_count} instincts + {gene_count} genes)")
+    print(f"  Project: {project['name']} ({project['id']})")
+    print(f"  Project-scoped: {len(project_instincts)} | Global: {len(global_instincts)}")
+    print(f"{'='*60}\n")
+
+    # Group by domain
+    by_domain = defaultdict(list)
+    for inst in instincts:
+        domain = inst.get('domain', 'general')
+        by_domain[domain].append(inst)
+
+    # High-confidence instincts by domain (candidates for skills)
+    high_conf = [i for i in instincts if i.get('confidence', 0) >= 0.8]
+    print(f"High confidence instincts (>=80%): {len(high_conf)}")
+
+    # Find clusters (instincts with similar triggers)
+    trigger_clusters = defaultdict(list)
+    for inst in instincts:
+        trigger = inst.get('trigger', '')
+        # Normalize trigger
+        trigger_key = trigger.lower()
+        for keyword in ['when', 'creating', 'writing', 'adding', 'implementing', 'testing']:
+            trigger_key = trigger_key.replace(keyword, '').strip()
+        trigger_clusters[trigger_key].append(inst)
+
+    # Find clusters with 2+ instincts (good skill candidates)
+    skill_candidates = []
+    for trigger, cluster in trigger_clusters.items():
+        if len(cluster) >= 2:
+            avg_conf = sum(i.get('confidence', 0.5) for i in cluster) / len(cluster)
+            skill_candidates.append({
+                'trigger': trigger,
+                'instincts': cluster,
+                'avg_confidence': avg_conf,
+                'domains': list(set(i.get('domain', 'general') for i in cluster)),
+                'scopes': list(set(i.get('scope', 'project') for i in cluster)),
+            })
+
+    # Sort by cluster size and confidence
+    skill_candidates.sort(key=lambda x: (-len(x['instincts']), -x['avg_confidence']))
+
+    print(f"\nPotential skill clusters found: {len(skill_candidates)}")
+
+    if skill_candidates:
+        print(f"\n## SKILL CANDIDATES\n")
+        for i, cand in enumerate(skill_candidates[:5], 1):
+            scope_info = ', '.join(cand['scopes'])
+            print(f"{i}. Cluster: \"{cand['trigger']}\"")
+            print(f"   Instincts: {len(cand['instincts'])}")
+            print(f"   Avg confidence: {cand['avg_confidence']:.0%}")
+            print(f"   Domains: {', '.join(cand['domains'])}")
+            print(f"   Scopes: {scope_info}")
+            print(f"   Instincts:")
+            for inst in cand['instincts'][:3]:
+                print(f"     - {inst.get('id')} [{inst.get('scope', '?')}]")
+            print()
+
+    # Command candidates (workflow instincts with high confidence)
+    workflow_instincts = [i for i in instincts if i.get('domain') == 'workflow' and i.get('confidence', 0) >= 0.7]
+    if workflow_instincts:
+        print(f"\n## COMMAND CANDIDATES ({len(workflow_instincts)})\n")
+        for inst in workflow_instincts[:5]:
+            trigger = inst.get('trigger', 'unknown')
+            cmd_name = trigger.replace('when ', '').replace('implementing ', '').replace('a ', '')
+            cmd_name = cmd_name.replace(' ', '-')[:20]
+            print(f"  /{cmd_name}")
+            print(f"    From: {inst.get('id')} [{inst.get('scope', '?')}]")
+            print(f"    Confidence: {inst.get('confidence', 0.5):.0%}")
+            print()
+
+    # Agent candidates (complex multi-step patterns)
+    agent_candidates = [c for c in skill_candidates if len(c['instincts']) >= 3 and c['avg_confidence'] >= 0.75]
+    if agent_candidates:
+        print(f"\n## AGENT CANDIDATES ({len(agent_candidates)})\n")
+        for cand in agent_candidates[:3]:
+            agent_name = cand['trigger'].replace(' ', '-')[:20] + '-agent'
+            print(f"  {agent_name}")
+            print(f"    Covers {len(cand['instincts'])} instincts")
+            print(f"    Avg confidence: {cand['avg_confidence']:.0%}")
+            print()
+
+    # Promotion candidates (project instincts that could be global)
+    _show_promotion_candidates(project)
+
+    if args.generate:
+        evolved_dir = project["evolved_dir"] if project["id"] != "global" else GLOBAL_EVOLVED_DIR
+        generated = _generate_evolved(skill_candidates, workflow_instincts, agent_candidates, evolved_dir)
+        if generated:
+            print(f"\nGenerated {len(generated)} evolved structures:")
+            for path in generated:
+                print(f"   {path}")
+        else:
+            print("\nNo structures generated (need higher-confidence clusters).")
+
+    print(f"\n{'='*60}\n")
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Promote Command
+# ─────────────────────────────────────────────
+
+def _find_cross_project_instincts() -> dict:
+    """Find instincts that appear in multiple projects (promotion candidates).
+
+    Returns dict mapping instinct ID → list of (project_id, instinct) tuples.
+    """
+    registry = load_registry()
+    cross_project = defaultdict(list)
+
+    for pid, pinfo in registry.items():
+        project_dir = PROJECTS_DIR / pid
+        personal_dir = project_dir / "instincts" / "personal"
+        inherited_dir = project_dir / "instincts" / "inherited"
+
+        # Track instinct IDs already seen for this project to avoid counting
+        # the same instinct twice within one project (e.g. in both personal/ and inherited/)
+        seen_in_project = set()
+        for d, stype in [(personal_dir, "personal"), (inherited_dir, "inherited")]:
+            for inst in _load_instincts_from_dir(d, stype, "project"):
+                iid = inst.get('id')
+                if iid and iid not in seen_in_project:
+                    seen_in_project.add(iid)
+                    cross_project[iid].append((pid, pinfo.get('name', pid), inst))
+
+    # Filter to only those appearing in 2+ unique projects
+    return {iid: entries for iid, entries in cross_project.items() if len(entries) >= 2}
+
+
+def _show_promotion_candidates(project: dict) -> None:
+    """Show instincts that could be promoted from project to global."""
+    cross = _find_cross_project_instincts()
+
+    if not cross:
+        return
+
+    # Filter to high-confidence ones not already global
+    global_instincts = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+    global_instincts += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+    global_ids = {i.get('id') for i in global_instincts}
+
+    candidates = []
+    for iid, entries in cross.items():
+        if iid in global_ids:
+            continue
+        avg_conf = sum(e[2].get('confidence', 0.5) for e in entries) / len(entries)
+        if avg_conf >= PROMOTE_CONFIDENCE_THRESHOLD:
+            candidates.append({
+                'id': iid,
+                'projects': [(pid, pname) for pid, pname, _ in entries],
+                'avg_confidence': avg_conf,
+                'sample': entries[0][2],
+            })
+
+    if candidates:
+        print(f"\n## PROMOTION CANDIDATES (project -> global)\n")
+        print(f"  These instincts appear in {PROMOTE_MIN_PROJECTS}+ projects with high confidence:\n")
+        for cand in candidates[:10]:
+            proj_names = ', '.join(pname for _, pname in cand['projects'])
+            print(f"  * {cand['id']} (avg: {cand['avg_confidence']:.0%})")
+            print(f"    Found in: {proj_names}")
+            print()
+        print(f"  Run `instinct-cli.py promote` to promote these to global scope.\n")
+
+
+def cmd_promote(args) -> int:
+    """Promote project-scoped instincts to global scope."""
+    project = detect_project()
+
+    if args.instinct_id:
+        # Promote a specific instinct
+        return _promote_specific(project, args.instinct_id, args.force, args.dry_run)
+    else:
+        # Auto-detect promotion candidates
+        return _promote_auto(project, args.force, args.dry_run)
+
+
+def _promote_specific(project: dict, instinct_id: str, force: bool, dry_run: bool = False) -> int:
+    """Promote a specific instinct by ID from current project to global."""
+    if not _validate_instinct_id(instinct_id):
+        print(f"Invalid instinct ID: '{instinct_id}'.", file=sys.stderr)
+        return 1
+
+    project_instincts = load_project_only_instincts(project)
+    target = next((i for i in project_instincts if i.get('id') == instinct_id), None)
+
+    if not target:
+        print(f"Instinct '{instinct_id}' not found in project {project['name']}.")
+        return 1
+
+    # Check if already global
+    global_instincts = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+    global_instincts += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+    if any(i.get('id') == instinct_id for i in global_instincts):
+        print(f"Instinct '{instinct_id}' already exists in global scope.")
+        return 1
+
+    print(f"\nPromoting: {instinct_id}")
+    print(f"  From: project '{project['name']}'")
+    print(f"  Confidence: {target.get('confidence', 0.5):.0%}")
+    print(f"  Domain: {target.get('domain', 'general')}")
+
+    if dry_run:
+        print("\n[DRY RUN] No changes made.")
+        return 0
+
+    if not force:
+        response = input(f"\nPromote to global? [y/N] ")
+        if response.lower() != 'y':
+            print("Cancelled.")
+            return 0
+
+    # Write to global personal directory
+    output_file = GLOBAL_PERSONAL_DIR / f"{instinct_id}.yaml"
+    output_content = "---\n"
+    output_content += f"id: {target.get('id')}\n"
+    output_content += f"trigger: {_yaml_quote(target.get('trigger', 'unknown'))}\n"
+    output_content += f"confidence: {target.get('confidence', 0.5)}\n"
+    output_content += f"domain: {target.get('domain', 'general')}\n"
+    output_content += f"source: {target.get('source', 'promoted')}\n"
+    output_content += f"scope: global\n"
+    output_content += f"promoted_from: {project['id']}\n"
+    output_content += f"promoted_date: {datetime.now(timezone.utc).isoformat().replace('+00:00', 'Z')}\n"
+    output_content += "---\n\n"
+    output_content += target.get('content', '') + "\n"
+
+    output_file.write_text(output_content, encoding="utf-8")
+    print(f"\nPromoted '{instinct_id}' to global scope.")
+    print(f"  Saved to: {output_file}")
+    return 0
+
+
+def _promote_auto(project: dict, force: bool, dry_run: bool) -> int:
+    """Auto-promote instincts found in multiple projects."""
+    cross = _find_cross_project_instincts()
+
+    global_instincts = _load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global")
+    global_instincts += _load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global")
+    global_ids = {i.get('id') for i in global_instincts}
+
+    candidates = []
+    for iid, entries in cross.items():
+        if iid in global_ids:
+            continue
+        avg_conf = sum(e[2].get('confidence', 0.5) for e in entries) / len(entries)
+        if avg_conf >= PROMOTE_CONFIDENCE_THRESHOLD and len(entries) >= PROMOTE_MIN_PROJECTS:
+            candidates.append({
+                'id': iid,
+                'entries': entries,
+                'avg_confidence': avg_conf,
+            })
+
+    if not candidates:
+        print("No instincts qualify for auto-promotion.")
+        print(f"  Criteria: appears in {PROMOTE_MIN_PROJECTS}+ projects, avg confidence >= {PROMOTE_CONFIDENCE_THRESHOLD:.0%}")
+        return 0
+
+    print(f"\n{'='*60}")
+    print(f"  AUTO-PROMOTION CANDIDATES - {len(candidates)} found")
+    print(f"{'='*60}\n")
+
+    for cand in candidates:
+        proj_names = ', '.join(pname for _, pname, _ in cand['entries'])
+        print(f"  {cand['id']} (avg: {cand['avg_confidence']:.0%})")
+        print(f"    Found in {len(cand['entries'])} projects: {proj_names}")
+
+    if dry_run:
+        print(f"\n[DRY RUN] No changes made.")
+        return 0
+
+    if not force:
+        response = input(f"\nPromote {len(candidates)} instincts to global? [y/N] ")
+        if response.lower() != 'y':
+            print("Cancelled.")
+            return 0
+
+    promoted = 0
+    for cand in candidates:
+        if not _validate_instinct_id(cand['id']):
+            print(f"Skipping invalid instinct ID during promotion: {cand['id']}", file=sys.stderr)
+            continue
+
+        # Use the highest-confidence version
+        best_entry = max(cand['entries'], key=lambda e: e[2].get('confidence', 0.5))
+        inst = best_entry[2]
+
+        output_file = GLOBAL_PERSONAL_DIR / f"{cand['id']}.yaml"
+        output_content = "---\n"
+        output_content += f"id: {inst.get('id')}\n"
+        output_content += f"trigger: {_yaml_quote(inst.get('trigger', 'unknown'))}\n"
+        output_content += f"confidence: {cand['avg_confidence']}\n"
+        output_content += f"domain: {inst.get('domain', 'general')}\n"
+        output_content += f"source: auto-promoted\n"
+        output_content += f"scope: global\n"
+        output_content += f"promoted_date: {datetime.now(timezone.utc).isoformat().replace('+00:00', 'Z')}\n"
+        output_content += f"seen_in_projects: {len(cand['entries'])}\n"
+        output_content += "---\n\n"
+        output_content += inst.get('content', '') + "\n"
+
+        output_file.write_text(output_content, encoding="utf-8")
+        promoted += 1
+
+    print(f"\nPromoted {promoted} instincts to global scope.")
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Projects Command
+# ─────────────────────────────────────────────
+
+def cmd_projects(args) -> int:
+    """List all known projects and their instinct counts."""
+    registry = load_registry()
+
+    if not registry:
+        print("No projects registered yet.")
+        print("Projects are auto-detected when you use Claude Code in a git repo.")
+        return 0
+
+    print(f"\n{'='*60}")
+    print(f"  KNOWN PROJECTS - {len(registry)} total")
+    print(f"{'='*60}\n")
+
+    for pid, pinfo in sorted(registry.items(), key=lambda x: x[1].get('last_seen', ''), reverse=True):
+        project_dir = PROJECTS_DIR / pid
+        personal_dir = project_dir / "instincts" / "personal"
+        inherited_dir = project_dir / "instincts" / "inherited"
+
+        personal_count = len(_load_instincts_from_dir(personal_dir, "personal", "project"))
+        inherited_count = len(_load_instincts_from_dir(inherited_dir, "inherited", "project"))
+        obs_file = project_dir / "observations.jsonl"
+        if obs_file.exists():
+            with open(obs_file, encoding="utf-8") as f:
+                obs_count = sum(1 for _ in f)
+        else:
+            obs_count = 0
+
+        print(f"  {pinfo.get('name', pid)} [{pid}]")
+        print(f"    Root: {pinfo.get('root', 'unknown')}")
+        if pinfo.get('remote'):
+            print(f"    Remote: {pinfo['remote']}")
+        print(f"    Instincts: {personal_count} personal, {inherited_count} inherited")
+        print(f"    Observations: {obs_count} events")
+        print(f"    Last seen: {pinfo.get('last_seen', 'unknown')}")
+        print()
+
+    # Global stats
+    global_personal = len(_load_instincts_from_dir(GLOBAL_PERSONAL_DIR, "personal", "global"))
+    global_inherited = len(_load_instincts_from_dir(GLOBAL_INHERITED_DIR, "inherited", "global"))
+    print(f"  GLOBAL")
+    print(f"    Instincts: {global_personal} personal, {global_inherited} inherited")
+
+    print(f"\n{'='*60}\n")
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Generate Evolved Structures
+# ─────────────────────────────────────────────
+
+def _generate_evolved(skill_candidates: list, workflow_instincts: list, agent_candidates: list, evolved_dir: Path) -> list[str]:
+    """Generate skill/command/agent files from analyzed instinct clusters."""
+    generated = []
+
+    # Generate skills from top candidates
+    for cand in skill_candidates[:5]:
+        trigger = cand['trigger'].strip()
+        if not trigger:
+            continue
+        name = re.sub(r'[^a-z0-9]+', '-', trigger.lower()).strip('-')[:30]
+        if not name:
+            continue
+
+        skill_dir = evolved_dir / "skills" / name
+        skill_dir.mkdir(parents=True, exist_ok=True)
+
+        content = f"# {name}\n\n"
+        content += f"Evolved from {len(cand['instincts'])} instincts "
+        content += f"(avg confidence: {cand['avg_confidence']:.0%})\n\n"
+        content += f"## When to Apply\n\n"
+        content += f"Trigger: {trigger}\n\n"
+        content += f"## Actions\n\n"
+        for inst in cand['instincts']:
+            inst_content = inst.get('content', '')
+            action_match = re.search(r'## Action\s*\n\s*(.+?)(?:\n\n|\n##|$)', inst_content, re.DOTALL)
+            action = action_match.group(1).strip() if action_match else inst.get('id', 'unnamed')
+            content += f"- {action}\n"
+
+        (skill_dir / "SKILL.md").write_text(content, encoding="utf-8")
+        generated.append(str(skill_dir / "SKILL.md"))
+
+    # Generate commands from workflow instincts
+    for inst in workflow_instincts[:5]:
+        trigger = inst.get('trigger', 'unknown')
+        cmd_name = re.sub(r'[^a-z0-9]+', '-', trigger.lower().replace('when ', '').replace('implementing ', ''))
+        cmd_name = cmd_name.strip('-')[:20]
+        if not cmd_name:
+            continue
+
+        cmd_file = evolved_dir / "commands" / f"{cmd_name}.md"
+        content = f"# {cmd_name}\n\n"
+        content += f"Evolved from instinct: {inst.get('id', 'unnamed')}\n"
+        content += f"Confidence: {inst.get('confidence', 0.5):.0%}\n\n"
+        content += inst.get('content', '')
+
+        cmd_file.write_text(content, encoding="utf-8")
+        generated.append(str(cmd_file))
+
+    # Generate agents from complex clusters
+    for cand in agent_candidates[:3]:
+        trigger = cand['trigger'].strip()
+        agent_name = re.sub(r'[^a-z0-9]+', '-', trigger.lower()).strip('-')[:20]
+        if not agent_name:
+            continue
+
+        agent_file = evolved_dir / "agents" / f"{agent_name}.md"
+        domains = ', '.join(cand['domains'])
+        instinct_ids = [i.get('id', 'unnamed') for i in cand['instincts']]
+
+        content = f"---\nmodel: sonnet\ntools: Read, Grep, Glob\n---\n"
+        content += f"# {agent_name}\n\n"
+        content += f"Evolved from {len(cand['instincts'])} instincts "
+        content += f"(avg confidence: {cand['avg_confidence']:.0%})\n"
+        content += f"Domains: {domains}\n\n"
+        content += f"## Source Instincts\n\n"
+        for iid in instinct_ids:
+            content += f"- {iid}\n"
+
+        agent_file.write_text(content, encoding="utf-8")
+        generated.append(str(agent_file))
+
+    return generated
+
+
+# ─────────────────────────────────────────────
+# Pending Instinct Helpers
+# ─────────────────────────────────────────────
+
+def _collect_pending_dirs() -> list[Path]:
+    """Return all pending instinct directories (global + per-project)."""
+    dirs = []
+    global_pending = GLOBAL_INSTINCTS_DIR / "pending"
+    if global_pending.is_dir():
+        dirs.append(global_pending)
+    if PROJECTS_DIR.is_dir():
+        for project_dir in sorted(PROJECTS_DIR.iterdir()):
+            if project_dir.is_dir():
+                pending = project_dir / "instincts" / "pending"
+                if pending.is_dir():
+                    dirs.append(pending)
+    return dirs
+
+
+def _parse_created_date(file_path: Path) -> Optional[datetime]:
+    """Parse the 'created' date from YAML frontmatter of an instinct file.
+
+    Falls back to file mtime if no 'created' field is found.
+    """
+    try:
+        content = file_path.read_text(encoding="utf-8")
+    except (OSError, UnicodeDecodeError):
+        return None
+
+    in_frontmatter = False
+    for line in content.split('\n'):
+        stripped = line.strip()
+        if stripped == '---':
+            if in_frontmatter:
+                break  # end of frontmatter without finding created
+            in_frontmatter = True
+            continue
+        if in_frontmatter and ':' in line:
+            key, value = line.split(':', 1)
+            if key.strip() == 'created':
+                date_str = value.strip().strip('"').strip("'")
+                for fmt in (
+                    "%Y-%m-%dT%H:%M:%S%z",
+                    "%Y-%m-%dT%H:%M:%SZ",
+                    "%Y-%m-%dT%H:%M:%S",
+                    "%Y-%m-%d",
+                ):
+                    try:
+                        dt = datetime.strptime(date_str, fmt)
+                        if dt.tzinfo is None:
+                            dt = dt.replace(tzinfo=timezone.utc)
+                        return dt
+                    except ValueError:
+                        continue
+
+    # Fallback: file modification time
+    try:
+        mtime = file_path.stat().st_mtime
+        return datetime.fromtimestamp(mtime, tz=timezone.utc)
+    except OSError:
+        return None
+
+
+def _collect_pending_instincts() -> list[dict]:
+    """Scan all pending directories and return info about each pending instinct.
+
+    Each dict contains: path, created, age_days, name, parent_dir.
+    """
+    now = datetime.now(timezone.utc)
+    results = []
+    for pending_dir in _collect_pending_dirs():
+        files = [
+            f for f in sorted(pending_dir.iterdir())
+            if f.is_file() and f.suffix.lower() in ALLOWED_INSTINCT_EXTENSIONS
+        ]
+        for file_path in files:
+            created = _parse_created_date(file_path)
+            if created is None:
+                print(f"Warning: could not parse age for pending instinct: {file_path.name}", file=sys.stderr)
+                continue
+            age = now - created
+            results.append({
+                "path": file_path,
+                "created": created,
+                "age_days": age.days,
+                "name": file_path.stem,
+                "parent_dir": str(pending_dir),
+            })
+    return results
+
+
+# ─────────────────────────────────────────────
+# Prune Command
+# ─────────────────────────────────────────────
+
+def cmd_prune(args) -> int:
+    """Delete pending instincts older than the TTL threshold."""
+    max_age = args.max_age
+    dry_run = args.dry_run
+    quiet = args.quiet
+
+    pending = _collect_pending_instincts()
+
+    expired = [p for p in pending if p["age_days"] >= max_age]
+    remaining = [p for p in pending if p["age_days"] < max_age]
+
+    if dry_run:
+        if not quiet:
+            if expired:
+                print(f"\n[DRY RUN] Would prune {len(expired)} pending instinct(s) older than {max_age} days:\n")
+                for item in expired:
+                    print(f"  - {item['name']} (age: {item['age_days']}d) — {item['path']}")
+            else:
+                print(f"No pending instincts older than {max_age} days.")
+            print(f"\nSummary: {len(expired)} would be pruned, {len(remaining)} remaining")
+        return 0
+
+    pruned = 0
+    pruned_items = []
+    for item in expired:
+        try:
+            item["path"].unlink()
+            pruned += 1
+            pruned_items.append(item)
+        except OSError as e:
+            if not quiet:
+                print(f"Warning: Failed to delete {item['path']}: {e}", file=sys.stderr)
+
+    if not quiet:
+        if pruned > 0:
+            print(f"\nPruned {pruned} pending instinct(s) older than {max_age} days.")
+            for item in pruned_items:
+                print(f"  - {item['name']} (age: {item['age_days']}d)")
+        else:
+            print(f"No pending instincts older than {max_age} days.")
+        failed = len(expired) - pruned
+        remaining_total = len(remaining) + failed
+        print(f"\nSummary: {pruned} pruned, {remaining_total} remaining")
+
+    return 0
+
+
+# ─────────────────────────────────────────────
+# Main
+# ─────────────────────────────────────────────
+
+def main() -> int:
+    _ensure_global_dirs()
+    parser = argparse.ArgumentParser(description='Instinct CLI for Continuous Learning v2.1 (Project-Scoped)')
+    subparsers = parser.add_subparsers(dest='command', help='Available commands')
+
+    # Status
+    status_parser = subparsers.add_parser('status', help='Show instinct status (project + global)')
+
+    # Import
+    import_parser = subparsers.add_parser('import', help='Import instincts')
+    import_parser.add_argument('source', help='File path or URL')
+    import_parser.add_argument('--dry-run', action='store_true', help='Preview without importing')
+    import_parser.add_argument('--force', action='store_true', help='Skip confirmation')
+    import_parser.add_argument('--min-confidence', type=float, help='Minimum confidence threshold')
+    import_parser.add_argument('--scope', choices=['project', 'global'], default='project',
+                               help='Import scope (default: project)')
+
+    # Export
+    export_parser = subparsers.add_parser('export', help='Export instincts')
+    export_parser.add_argument('--output', '-o', help='Output file')
+    export_parser.add_argument('--domain', help='Filter by domain')
+    export_parser.add_argument('--min-confidence', type=float, help='Minimum confidence')
+    export_parser.add_argument('--scope', choices=['project', 'global', 'all'], default='all',
+                               help='Export scope (default: all)')
+
+    # Evolve
+    evolve_parser = subparsers.add_parser('evolve', help='Analyze and evolve instincts')
+    evolve_parser.add_argument('--generate', action='store_true', help='Generate evolved structures')
+
+    # Promote (new in v2.1)
+    promote_parser = subparsers.add_parser('promote', help='Promote project instincts to global scope')
+    promote_parser.add_argument('instinct_id', nargs='?', help='Specific instinct ID to promote')
+    promote_parser.add_argument('--force', action='store_true', help='Skip confirmation')
+    promote_parser.add_argument('--dry-run', action='store_true', help='Preview without promoting')
+
+    # Projects (new in v2.1)
+    projects_parser = subparsers.add_parser('projects', help='List known projects and instinct counts')
+
+    # Prune (pending instinct TTL)
+    prune_parser = subparsers.add_parser('prune', help='Delete pending instincts older than TTL')
+    prune_parser.add_argument('--max-age', type=int, default=PENDING_TTL_DAYS,
+                              help=f'Max age in days before pruning (default: {PENDING_TTL_DAYS})')
+    prune_parser.add_argument('--dry-run', action='store_true', help='Preview without deleting')
+    prune_parser.add_argument('--quiet', action='store_true', help='Suppress output (for automated use)')
+
+    args = parser.parse_args()
+
+    if args.command == 'status':
+        return cmd_status(args)
+    elif args.command == 'import':
+        return cmd_import(args)
+    elif args.command == 'export':
+        return cmd_export(args)
+    elif args.command == 'evolve':
+        return cmd_evolve(args)
+    elif args.command == 'promote':
+        return cmd_promote(args)
+    elif args.command == 'projects':
+        return cmd_projects(args)
+    elif args.command == 'prune':
+        return cmd_prune(args)
+    else:
+        parser.print_help()
+        return 1
+
+
+if __name__ == '__main__':
+    sys.exit(main())