agent-method 1.5.0 → 1.5.1

package/templates/README.md

@@ -1,293 +1,293 @@
-# Template Kit
-
-Copyable project templates. Pick one, copy it into your project root, fill in PROJECT.md, and start working with your AI agent.
-
-## Starter template (minimum viable)
-
-For most projects. Seven files that give you cross-session memory, scoped context loading, persistent codebase understanding, lifecycle tracking, and structured execution.
-
-```
-starter/
-  CLAUDE.md           # Claude Code entry point (auto-loaded)
-  .cursorrules        # Cursor entry point (auto-loaded)
-  AGENT.md            # Generic entry point (manual loading)
-  PROJECT.md          # Your project vision -- fill this in first
-  PROJECT-PROFILE.md  # Project type, lifecycle stage, active extensions (agent-maintained)
-  STATE.md            # Decisions, blockers, current position
-  ROADMAP.md          # Phase breakdown with gate criteria
-  PLAN.md             # Current task with verification criteria
-  .context/
-    BASE.md           # Core context -- always loaded with entry point
-```
-
-**Setup**: Delete the two entry point files you don't use. Keep the one that matches your agent runtime.
-
-**What you get**: Persistent decisions, scoped file reading, phase-gated execution, atomic task tracking, configurable interaction level, persistent codebase context.
-
-**What you don't get**: Specialist context pairing, human-facing docs scaffold, execution history, full communication point structure.
-
-## Full template (complete methodology)
-
-For complex or multi-phase projects where context management and dual-audience separation matter.
-
-```
-full/
-  CLAUDE.md         # Claude Code entry point (auto-loaded)
-  .cursorrules      # Cursor entry point (auto-loaded)
-  AGENT.md          # Generic entry point (manual loading)
-  PROJECT.md          # Vision, audiences, structure
-  PROJECT-PROFILE.md  # Project type, lifecycle, extensions (agent-maintained)
-  STATE.md            # Decisions, blockers, position, open questions
-  REQUIREMENTS.md     # Scoped features with phase traceability
-  ROADMAP.md        # Phase breakdown with gate criteria
-  PLAN.md           # Current atomic task
-  SUMMARY.md        # Execution history (session audit trail)
-  .context/
-    BASE.md         # Core context -- always loaded with entry point
-  docs/
-    index.md        # Human-facing project dashboard (checkpoint records land here)
-  todos/
-    backlog.md      # Captured ideas for future work
-```
-
-**Setup**: Delete the two entry point files you don't use. Keep the one that matches your agent runtime.
-
-**What you get**: Everything in starter, plus specialist context pairing, dependency cascade, execution history, human dashboard scaffold, backlog capture, full communication point structure (direction, checkpoint, record).
-
-## Template content: guided, not empty
-
-Template files ship with **inline instructions** — structured prompts that show both the user and the agent what goes in each section. The agent can read these instructions and help populate the files.
-
-Example from a guided PROJECT.md:
-```markdown
-# {Your Project Name}
-
-<!-- INSTRUCTION: Replace with a 2-3 sentence description of your project -->
-{Describe what your project does and who it's for}
-
-## Problem
-<!-- INSTRUCTION: What problem does this solve? 2-3 bullet points. -->
-
-## Solution
-<!-- INSTRUCTION: How does the project solve the problem? -->
-```
-
-Example from a guided .context/BASE.md:
-```markdown
-# Base Context — Always Loaded
-
-## What this system is
-<!-- INSTRUCTION: 2-3 sentences describing your project's architecture -->
-
-## Codebase map
-<!-- INSTRUCTION: Table of directories, their purposes, and key patterns -->
-<!-- The agent will help populate this from a codebase scan -->
-| Path | Purpose | Key patterns |
-|------|---------|-------------|
-
-## Pairing protocol
-| Task type | Pair BASE.md with |
-|-----------|-------------------|
-<!-- INSTRUCTION: Add rows as you create specialist .context/ files -->
-```
-
-The inline instructions serve as:
-- **User guidance**: Human sees what to fill in
-- **Agent prompts**: Agent reads the instructions and can help populate
-- **Structure enforcement**: Files have the right sections from day one
-
-## Bootstrapping: new project vs existing codebase
-
-### Greenfield (starting from scratch)
-
-1. Copy template into your project root
-2. Delete the two entry point files you don't use
-3. Fill in PROJECT.md with your project vision
-4. Start a conversation — the agent helps populate .context/BASE.md as you build
-
-### Brownfield (existing codebase)
-
-1. Copy template into your existing project root
-2. Delete the two entry point files you don't use
-3. Fill in PROJECT.md with your project vision
-4. Ask the agent: "Scan the codebase and populate the context files"
-5. Agent activates the **Discovery workflow (WF-08)**:
-   - **Inventory**: Walks entire project structure, maps directories and files
-   - **Map**: Traces dependencies (packages, imports, services)
-   - **Extract**: Identifies patterns, conventions, and architectural decisions
-   - **Assess**: Evaluates technical debt, risks, and improvement opportunities
-   - **Bootstrap**: Writes .context/BASE.md, proposes specialists, updates scoping table
-6. Agent updates PROJECT-PROFILE.md lifecycle stage to "discovery"
-7. You approve specialist files; agent transitions lifecycle to "development" when ready
-
-### Integration profiles
-
-Both templates support three integration profiles that control how much methodology surface area gets installed. This is critical for brownfield projects and lighter models.
-
-| Profile | Target model | What's installed | Entry point budget |
-|---------|-------------|-----------------|-------------------|
-| **Lite** | Haiku, GPT-3.5 | STATE.md + .context/METHODOLOGY.md | 25 lines |
-| **Standard** | Sonnet, GPT-4 | STATE.md, PLAN.md, .context/BASE.md, .context/METHODOLOGY.md | 40 lines |
-| **Full** | Opus, o1 | All intelligence layer files | 60 lines |
-
-For lite and standard profiles, operational details (workflows, extended conventions, do-not rules) overflow to `.context/METHODOLOGY.md` — loaded on-demand via the scoping table, not every session. This keeps the entry point lean enough for lighter models to process reliably.
-
-When setup.sh detects an existing entry point file, it uses the **brownfield merge protocol**: methodology content is appended to the existing file rather than overwriting it.
-
-See `docs/architecture/integration-profiles.md` for the full specification.
-
-### Interaction level (in entry point)
-
-Both templates include an interaction level setting in the entry point:
-
-```markdown
-## Interaction level
-mode: checkpoint    # autonomous | checkpoint | collaborative | supervised
-```
-
-| Level | Agent behavior |
-|-------|---------------|
-| **autonomous** | Executes full plan, reports at completion |
-| **checkpoint** | Proposes plan, executes after approval, reports at completion |
-| **collaborative** | Back-and-forth at each step |
-| **supervised** | Explains intent before every file change |
-
-## Entry points (all three included)
-
-Both templates ship with all three entry point variants. Pick the one that matches your runtime and delete the others:
-
-| File | Runtime | Auto-loaded? |
-|------|---------|:------------:|
-| `CLAUDE.md` | Claude Code | Yes |
-| `.cursorrules` | Cursor | Yes |
-| `AGENT.md` | Any agent (manual loading) | No |
-
-All three contain identical scoping rules, cascade structure, and conventions — only the filename and auto-loading behavior differ.
-
-Standalone entry point files are also available in `entry-points/` for reference or individual use.
-
-## Project-type extensions
-
-The starter and full templates ship with **universal** scoping rules, cascade rules, and workflows that work for any project. For project-type-specific capabilities, apply an extension.
-
-```
-extensions/
-  MANIFEST.md             # Extension composition rules, compatibility matrix
-  code-project.md         # Code-specific: scoping, cascade, WF-02, specialists
-  data-exploration.md     # Data-specific: exploration commands, WF-05, specialists
-  analytical-system.md    # Analytical-specific: chain work, evaluation, WF-06, specialists
-```
-
-### How to apply an extension
-
-1. Open the extension file (e.g., `extensions/code-project.md`)
-2. Copy each section's rows into the corresponding section of your entry point
-3. Create the recommended specialist .context/ files as your project grows
-4. Delete the extension file — it's a reference, not a runtime artifact
-
-### Extensions are additive
-
-Extensions add rows to existing tables — they never override universal content. You can apply multiple extensions for projects that span types:
-
-```
-Base entry point (universal)
-  + code-project.md (code scoping, cascade, WF-02)
-  + data-exploration.md (exploration scoping, cascade, WF-05)
-  + analytical-system.md (chain/evaluation scoping, cascade, WF-06)
-  = Mixed project entry point (any combination)
-```
-
-### Registry-driven derivation
-
-Extensions are derived from the feature registry (`docs/internal/feature-registry.yaml`). Each extension's scoping rules trace to registry `query_patterns`, cascade rules trace to registry `dependencies`, and workflows trace to registry `workflows`. See `docs/internal/entry-point-derivation.md` for the derivation specification.
-
-## What the entry point embeds
-
-The entry point distills the methodology's behavioral protocol into a dense, table-driven file:
-
-- **Scoping rules** — Query-type-to-file mapping. The agent reads the table, loads the right files, and constrains writes. Derived from the 4 universal query types plus project-specific types.
-- **Cascade table** — "When X changes, also update Y." Prevents file drift by making dependencies explicit. The agent checks this after every change.
-- **Workflow selection** — Eight guided workflows: general task (WF-01), code change (WF-02), context refresh (WF-03), bootstrap (WF-04), data exploration (WF-05), analytical system (WF-06), specification project (WF-07), discovery (WF-08). The agent selects based on query type, project type, and lifecycle stage.
-- **Conventions** — Six behavioral rules derived from the agent protocol directives: record decisions immediately, scope to avoid drowning, cascade is not optional, build understanding not just code, surface uncertainty, human controls direction.
-- **Interaction level** — Configurable checkpoint density from autonomous to supervised.
-
-An agent reading the entry point can follow the full behavioral protocol without accessing any other methodology documentation.
-
-## Context maintenance
-
-Context files are living documents. As your project evolves, the agent keeps them current:
-
-- **Code changes** → Agent updates .context/BASE.md codebase map via cascade
-- **New domain areas** → Agent suggests creating specialist .context/ files
-- **Architecture decisions** → Agent records them in relevant .context/ files
-- **Context drift** → Ask the agent "refresh the project context" to resync
-
-See `docs/architecture/context-pairing.md` for the full context maintenance lifecycle.
-
-## How to use
-
-### Recommended: npx
-
-```bash
-npx agent-method init code ~/my-project
-```
-
-Replace `code` with: `context`, `data`, `mix`, or `general`.
-
-### Manual
-
-1. Copy `starter/` or `full/` into your project root
-2. Delete the two entry point files you don't use
-3. Fill in `PROJECT.md` with your project vision
-4. Start a conversation with your agent — it reads the entry point and knows what to do
-5. For existing codebases: ask the agent to scan and populate context files
-
-See `docs/guides/quick-start.md` for a detailed walkthrough.
-
-## CLI Tools (optional)
-
-The methodology works without any tooling. For teams that want additional validation and automation:
-
-```bash
-npx agent-method                        # zero-install (Node.js 18+)
-npm install -g agent-method             # permanent install
-pip install agent-method-tools          # Python alternative
-```
-
-### Developer commands
-
-| Command | Use case |
-|---------|----------|
-| `agent-method check` | Validate entry point (auto-finds CLAUDE.md/.cursorrules/AGENT.md) |
-| `agent-method scan` | Detect project type from directory contents |
-| `agent-method route "<query>"` | Test how a query routes through the pipeline |
-| `agent-method refine` | Extract refinement report (auto-finds SESSION-LOG.md) |
-| `agent-method status` | Check if methodology version is current |
-| `agent-method upgrade` | Brownfield-safe update (adds missing files, updates version) |
-| `agent-method init <type>` | Describe entry point contents for a project type |
-
-### Project types
-
-Use friendly names everywhere — all commands accept aliases:
-
-```bash
-agent-method init code      # software project
-agent-method init context   # analytical/prompt project (e.g. PromptStudy)
-agent-method init data      # data index/querying project (e.g. SysMLv2)
-agent-method init mix       # multi-type project
-```
-
-### Advanced: pipeline subcommands
-
-For debugging routing logic: `agent-method pipeline classify|select|resolve|cascade|test`.
-
-### Dependencies
-
-- Python 3.9+
-- PyYAML >= 6.0
-- Click >= 8.0
-
-### Future enhancements
-
-- MCP server: `pip install agent-method-tools[mcp]` — exposes pipeline as agent-callable tools
-- Registry watcher: `pip install agent-method-tools[watch]` — proactive validation on file changes
+# Template Kit
+
+Copyable project templates. Pick one, copy it into your project root, fill in PROJECT.md, and start working with your AI agent.
+
+## Starter template (minimum viable)
+
+For most projects. Seven files that give you cross-session memory, scoped context loading, persistent codebase understanding, lifecycle tracking, and structured execution.
+
+```
+starter/
+  CLAUDE.md           # Claude Code entry point (auto-loaded)
+  .cursorrules        # Cursor entry point (auto-loaded)
+  AGENT.md            # Generic entry point (manual loading)
+  PROJECT.md          # Your project vision -- fill this in first
+  PROJECT-PROFILE.md  # Project type, lifecycle stage, active extensions (agent-maintained)
+  STATE.md            # Decisions, blockers, current position
+  ROADMAP.md          # Phase breakdown with gate criteria
+  PLAN.md             # Current task with verification criteria
+  .context/
+    BASE.md           # Core context -- always loaded with entry point
+```
+
+**Setup**: Delete the two entry point files you don't use. Keep the one that matches your agent runtime.
+
+**What you get**: Persistent decisions, scoped file reading, phase-gated execution, atomic task tracking, configurable interaction level, persistent codebase context.
+
+**What you don't get**: Specialist context pairing, human-facing docs scaffold, execution history, full communication point structure.
+
+## Full template (complete methodology)
+
+For complex or multi-phase projects where context management and dual-audience separation matter.
+
+```
+full/
+  CLAUDE.md         # Claude Code entry point (auto-loaded)
+  .cursorrules      # Cursor entry point (auto-loaded)
+  AGENT.md          # Generic entry point (manual loading)
+  PROJECT.md          # Vision, audiences, structure
+  PROJECT-PROFILE.md  # Project type, lifecycle, extensions (agent-maintained)
+  STATE.md            # Decisions, blockers, position, open questions
+  REQUIREMENTS.md     # Scoped features with phase traceability
+  ROADMAP.md        # Phase breakdown with gate criteria
+  PLAN.md           # Current atomic task
+  SUMMARY.md        # Execution history (session audit trail)
+  .context/
+    BASE.md         # Core context -- always loaded with entry point
+  docs/
+    index.md        # Human-facing project dashboard (checkpoint records land here)
+  todos/
+    backlog.md      # Captured ideas for future work
+```
+
+**Setup**: Delete the two entry point files you don't use. Keep the one that matches your agent runtime.
+
+**What you get**: Everything in starter, plus specialist context pairing, dependency cascade, execution history, human dashboard scaffold, backlog capture, full communication point structure (direction, checkpoint, record).
+
+## Template content: guided, not empty
+
+Template files ship with **inline instructions** — structured prompts that show both the user and the agent what goes in each section. The agent can read these instructions and help populate the files.
+
+Example from a guided PROJECT.md:
+```markdown
+# {Your Project Name}
+
+<!-- INSTRUCTION: Replace with a 2-3 sentence description of your project -->
+{Describe what your project does and who it's for}
+
+## Problem
+<!-- INSTRUCTION: What problem does this solve? 2-3 bullet points. -->
+
+## Solution
+<!-- INSTRUCTION: How does the project solve the problem? -->
+```
+
+Example from a guided .context/BASE.md:
+```markdown
+# Base Context — Always Loaded
+
+## What this system is
+<!-- INSTRUCTION: 2-3 sentences describing your project's architecture -->
+
+## Codebase map
+<!-- INSTRUCTION: Table of directories, their purposes, and key patterns -->
+<!-- The agent will help populate this from a codebase scan -->
+| Path | Purpose | Key patterns |
+|------|---------|-------------|
+
+## Pairing protocol
+| Task type | Pair BASE.md with |
+|-----------|-------------------|
+<!-- INSTRUCTION: Add rows as you create specialist .context/ files -->
+```
+
+The inline instructions serve as:
+- **User guidance**: Human sees what to fill in
+- **Agent prompts**: Agent reads the instructions and can help populate
+- **Structure enforcement**: Files have the right sections from day one
+
+## Bootstrapping: new project vs existing codebase
+
+### Greenfield (starting from scratch)
+
+1. Copy template into your project root
+2. Delete the two entry point files you don't use
+3. Fill in PROJECT.md with your project vision
+4. Start a conversation — the agent helps populate .context/BASE.md as you build
+
+### Brownfield (existing codebase)
+
+1. Copy template into your existing project root
+2. Delete the two entry point files you don't use
+3. Fill in PROJECT.md with your project vision
+4. Ask the agent: "Scan the codebase and populate the context files"
+5. Agent activates the **Discovery workflow (WF-08)**:
+   - **Inventory**: Walks entire project structure, maps directories and files
+   - **Map**: Traces dependencies (packages, imports, services)
+   - **Extract**: Identifies patterns, conventions, and architectural decisions
+   - **Assess**: Evaluates technical debt, risks, and improvement opportunities
+   - **Bootstrap**: Writes .context/BASE.md, proposes specialists, updates scoping table
+6. Agent updates PROJECT-PROFILE.md lifecycle stage to "discovery"
+7. You approve specialist files; agent transitions lifecycle to "development" when ready
+
+### Integration profiles
+
+Both templates support three integration profiles that control how much methodology surface area gets installed. This is critical for brownfield projects and lighter models.
+
+| Profile | Target model | What's installed | Entry point budget |
+|---------|-------------|-----------------|-------------------|
+| **Lite** | Haiku, GPT-3.5 | STATE.md + .context/METHODOLOGY.md | 25 lines |
+| **Standard** | Sonnet, GPT-4 | STATE.md, PLAN.md, .context/BASE.md, .context/METHODOLOGY.md | 40 lines |
+| **Full** | Opus, o1 | All intelligence layer files | 60 lines |
+
+For lite and standard profiles, operational details (workflows, extended conventions, do-not rules) overflow to `.context/METHODOLOGY.md` — loaded on-demand via the scoping table, not every session. This keeps the entry point lean enough for lighter models to process reliably.
+
+When setup.sh detects an existing entry point file, it uses the **brownfield merge protocol**: methodology content is appended to the existing file rather than overwriting it.
+
+See `docs/architecture/integration-profiles.md` for the full specification.
+
+### Interaction level (in entry point)
+
+Both templates include an interaction level setting in the entry point:
+
+```markdown
+## Interaction level
+mode: checkpoint    # autonomous | checkpoint | collaborative | supervised
+```
+
+| Level | Agent behavior |
+|-------|---------------|
+| **autonomous** | Executes full plan, reports at completion |
+| **checkpoint** | Proposes plan, executes after approval, reports at completion |
+| **collaborative** | Back-and-forth at each step |
+| **supervised** | Explains intent before every file change |
+
+## Entry points (all three included)
+
+Both templates ship with all three entry point variants. Pick the one that matches your runtime and delete the others:
+
+| File | Runtime | Auto-loaded? |
+|------|---------|:------------:|
+| `CLAUDE.md` | Claude Code | Yes |
+| `.cursorrules` | Cursor | Yes |
+| `AGENT.md` | Any agent (manual loading) | No |
+
+All three contain identical scoping rules, cascade structure, and conventions — only the filename and auto-loading behavior differ.
+
+Standalone entry point files are also available in `entry-points/` for reference or individual use.
+
+## Project-type extensions
+
+The starter and full templates ship with **universal** scoping rules, cascade rules, and workflows that work for any project. For project-type-specific capabilities, apply an extension.
+
+```
+extensions/
+  MANIFEST.md             # Extension composition rules, compatibility matrix
+  code-project.md         # Code-specific: scoping, cascade, WF-02, specialists
+  data-exploration.md     # Data-specific: exploration commands, WF-05, specialists
+  analytical-system.md    # Analytical-specific: chain work, evaluation, WF-06, specialists
+```
+
+### How to apply an extension
+
+1. Open the extension file (e.g., `extensions/code-project.md`)
+2. Copy each section's rows into the corresponding section of your entry point
+3. Create the recommended specialist .context/ files as your project grows
+4. Delete the extension file — it's a reference, not a runtime artifact
+
+### Extensions are additive
+
+Extensions add rows to existing tables — they never override universal content. You can apply multiple extensions for projects that span types:
+
+```
+Base entry point (universal)
+  + code-project.md (code scoping, cascade, WF-02)
+  + data-exploration.md (exploration scoping, cascade, WF-05)
+  + analytical-system.md (chain/evaluation scoping, cascade, WF-06)
+  = Mixed project entry point (any combination)
+```
+
+### Registry-driven derivation
+
+Extensions are derived from the feature registry (`docs/internal/feature-registry.yaml`). Each extension's scoping rules trace to registry `query_patterns`, cascade rules trace to registry `dependencies`, and workflows trace to registry `workflows`. See `docs/internal/entry-point-derivation.md` for the derivation specification.
+
+## What the entry point embeds
+
+The entry point distills the methodology's behavioral protocol into a dense, table-driven file:
+
+- **Scoping rules** — Query-type-to-file mapping. The agent reads the table, loads the right files, and constrains writes. Derived from the 4 universal query types plus project-specific types.
+- **Cascade table** — "When X changes, also update Y." Prevents file drift by making dependencies explicit. The agent checks this after every change.
+- **Workflow selection** — Eight guided workflows: general task (WF-01), code change (WF-02), context refresh (WF-03), bootstrap (WF-04), data exploration (WF-05), analytical system (WF-06), specification project (WF-07), discovery (WF-08). The agent selects based on query type, project type, and lifecycle stage.
+- **Conventions** — Six behavioral rules derived from the agent protocol directives: record decisions immediately, scope to avoid drowning, cascade is not optional, build understanding not just code, surface uncertainty, human controls direction.
+- **Interaction level** — Configurable checkpoint density from autonomous to supervised.
+
+An agent reading the entry point can follow the full behavioral protocol without accessing any other methodology documentation.
+
+## Context maintenance
+
+Context files are living documents. As your project evolves, the agent keeps them current:
+
+- **Code changes** → Agent updates .context/BASE.md codebase map via cascade
+- **New domain areas** → Agent suggests creating specialist .context/ files
+- **Architecture decisions** → Agent records them in relevant .context/ files
+- **Context drift** → Ask the agent "refresh the project context" to resync
+
+See `docs/architecture/context-pairing.md` for the full context maintenance lifecycle.
+
+## How to use
+
+### Recommended: npx
+
+```bash
+npx agent-method init code ~/my-project
+```
+
+Replace `code` with: `context`, `data`, `mix`, or `general`.
+
+### Manual
+
+1. Copy `starter/` or `full/` into your project root
+2. Delete the two entry point files you don't use
+3. Fill in `PROJECT.md` with your project vision
+4. Start a conversation with your agent — it reads the entry point and knows what to do
+5. For existing codebases: ask the agent to scan and populate context files
+
+See `docs/guides/quick-start.md` for a detailed walkthrough.
+
+## CLI Tools (optional)
+
+The methodology works without any tooling. For teams that want additional validation and automation:
+
+```bash
+npx agent-method                        # zero-install (Node.js 18+)
+npm install -g agent-method             # permanent install
+pip install agent-method-tools          # Python alternative
+```
+
+### Developer commands
+
+| Command | Use case |
+|---------|----------|
+| `npx agent-method check` | Validate entry point (auto-finds CLAUDE.md/.cursorrules/AGENT.md) |
+| `npx agent-method scan` | Detect project type from directory contents |
+| `npx agent-method route "<query>"` | Test how a query routes through the pipeline |
+| `npx agent-method refine` | Extract refinement report (auto-finds SESSION-LOG.md) |
+| `npx agent-method status` | Check if methodology version is current |
+| `npx agent-method upgrade` | Brownfield-safe update (adds missing files, updates version) |
+| `npx agent-method init <type>` | Describe entry point contents for a project type |
+
+### Project types
+
+Use friendly names everywhere — all commands accept aliases:
+
+```bash
+agent-method init code      # software project
+agent-method init context   # analytical/prompt project (e.g. PromptStudy)
+agent-method init data      # data index/querying project (e.g. SysMLv2)
+agent-method init mix       # multi-type project
+```
+
+### Advanced: pipeline subcommands
+
+For debugging routing logic: `npx agent-method pipeline classify|select|resolve|cascade|test`.
+
+### Dependencies
+
+- Python 3.9+
+- PyYAML >= 6.0
+- Click >= 8.0
+
+### Future enhancements
+
+- MCP server: `pip install agent-method-tools[mcp]` — exposes pipeline as agent-callable tools
+- Registry watcher: `pip install agent-method-tools[watch]` — proactive validation on file changes

package/templates/entry-points/.cursorrules

@@ -66,7 +66,7 @@ tier: standard
 
 method_version: 1.5
 <!-- Tracks which methodology version generated this entry point -->
-<!-- Use `agent-method status` to compare against latest -->
+<!-- Use `npx agent-method status` to compare against latest -->
 
 ## CLI tools (optional)
 
@@ -74,13 +74,13 @@ Available via `npx agent-method` (zero-install) or `pip install agent-method-too
 
 | When you want to... | Run |
 |---------------------|-----|
-| Validate this entry point | `agent-method check` |
-| See what type of project this is | `agent-method scan` |
-| Test how a query routes | `agent-method route "your question"` |
-| Extract a refinement report | `agent-method refine` |
-| Check methodology version | `agent-method status` |
-| Update methodology files | `agent-method upgrade` |
-| See what an entry point should contain | `agent-method init code` / `context` / `data` / `mix` |
+| Validate this entry point | `npx agent-method check` |
+| See what type of project this is | `npx agent-method scan` |
+| Test how a query routes | `npx agent-method route "your question"` |
+| Extract a refinement report | `npx agent-method refine` |
+| Check methodology version | `npx agent-method status` |
+| Update methodology files | `npx agent-method upgrade` |
+| See what an entry point should contain | `npx agent-method init code` / `context` / `data` / `mix` |
 
 <!-- INSTRUCTION: The agent can suggest these commands when the user asks about validation,
      project setup, or methodology updates. All commands auto-detect project type and find

package/templates/entry-points/AGENT.md

@@ -66,7 +66,7 @@ tier: standard
 
 method_version: 1.5
 <!-- Tracks which methodology version generated this entry point -->
-<!-- Use `agent-method status` to compare against latest -->
+<!-- Use `npx agent-method status` to compare against latest -->
 
 ## CLI tools (optional)
 
@@ -74,13 +74,13 @@ Available via `npx agent-method` (zero-install) or `pip install agent-method-too
 
 | When you want to... | Run |
 |---------------------|-----|
-| Validate this entry point | `agent-method check` |
-| See what type of project this is | `agent-method scan` |
-| Test how a query routes | `agent-method route "your question"` |
-| Extract a refinement report | `agent-method refine` |
-| Check methodology version | `agent-method status` |
-| Update methodology files | `agent-method upgrade` |
-| See what an entry point should contain | `agent-method init code` / `context` / `data` / `mix` |
+| Validate this entry point | `npx agent-method check` |
+| See what type of project this is | `npx agent-method scan` |
+| Test how a query routes | `npx agent-method route "your question"` |
+| Extract a refinement report | `npx agent-method refine` |
+| Check methodology version | `npx agent-method status` |
+| Update methodology files | `npx agent-method upgrade` |
+| See what an entry point should contain | `npx agent-method init code` / `context` / `data` / `mix` |
 
 <!-- INSTRUCTION: The agent can suggest these commands when the user asks about validation,
      project setup, or methodology updates. All commands auto-detect project type and find