gsd-pi 2.82.0 → 3.0.0-dev.8b8d129d7

package/src/resources/extensions/gsd/preferences-validation.ts

@@ -9,6 +9,7 @@
 import type { GitPreferences } from "./git-service.js";
 import type { PostUnitHookConfig, PreDispatchHookConfig, TokenProfile, PhaseSkipPreferences } from "./types.js";
 import type { DynamicRoutingConfig } from "./model-router.js";
+import { isAbsolute } from "node:path";
 import { VALID_BRANCH_NAME } from "./git-service.js";
 import { normalizeStringArray } from "../shared/format-utils.js";
 
@@ -1216,6 +1217,150 @@ export function validatePreferences(preferences: GSDPreferences): {
     }
   }
 
+  // ─── Claude Code MCP Per-Model Config ───────────────────────────────────────
+  if (preferences.claude_code_mcp !== undefined) {
+    if (typeof preferences.claude_code_mcp === "object" && preferences.claude_code_mcp !== null) {
+      const raw = preferences.claude_code_mcp as unknown as Record<string, unknown>;
+      if (typeof raw.per_model !== "object" || raw.per_model === null || Array.isArray(raw.per_model)) {
+        warnings.push("claude_code_mcp.per_model must be an object — ignoring claude_code_mcp");
+      } else {
+        const perModel = raw.per_model as Record<string, unknown>;
+        const validPerModel: Record<string, { allowed_servers?: string[]; blocked_servers?: string[] }> = {};
+        for (const [prefix, entry] of Object.entries(perModel)) {
+          if (typeof entry !== "object" || entry === null || Array.isArray(entry)) {
+            warnings.push(`claude_code_mcp.per_model["${prefix}"] must be an object — ignoring entry`);
+            continue;
+          }
+          const e = entry as Record<string, unknown>;
+          const validEntry: { allowed_servers?: string[]; blocked_servers?: string[] } = {};
+          for (const field of ["allowed_servers", "blocked_servers"] as const) {
+            if (e[field] !== undefined) {
+              if (Array.isArray(e[field]) && (e[field] as unknown[]).every((s) => typeof s === "string")) {
+                validEntry[field] = e[field] as string[];
+              } else {
+                warnings.push(`claude_code_mcp.per_model["${prefix}"].${field} must be an array of strings — ignoring field`);
+              }
+            }
+          }
+          validPerModel[prefix] = validEntry;
+        }
+        validated.claude_code_mcp = { per_model: validPerModel };
+      }
+    } else {
+      warnings.push("claude_code_mcp must be an object — ignoring");
+    }
+  }
+
+  // ─── Workspace Repository Registry ─────────────────────────────────
+  if (preferences.workspace !== undefined) {
+    if (typeof preferences.workspace === "object" && preferences.workspace !== null && !Array.isArray(preferences.workspace)) {
+      const workspace = preferences.workspace as Record<string, unknown>;
+      const validWorkspace: NonNullable<GSDPreferences["workspace"]> = {};
+
+      if (workspace.mode !== undefined) {
+        if (workspace.mode === "project" || workspace.mode === "parent") {
+          validWorkspace.mode = workspace.mode;
+        } else {
+          errors.push('workspace.mode must be one of: project, parent');
+        }
+      }
+
+      if (workspace.repositories !== undefined) {
+        if (
+          typeof workspace.repositories === "object" &&
+          workspace.repositories !== null &&
+          !Array.isArray(workspace.repositories)
+        ) {
+          const repos = workspace.repositories as Record<string, unknown>;
+          const validRepos: NonNullable<NonNullable<GSDPreferences["workspace"]>["repositories"]> = {};
+          const normalizedPaths = new Set<string>();
+
+          for (const [repoId, repoValue] of Object.entries(repos)) {
+            if (!/^[A-Za-z0-9][A-Za-z0-9._-]*$/.test(repoId)) {
+              errors.push(`workspace.repositories key "${repoId}" must match /^[A-Za-z0-9][A-Za-z0-9._-]*$/`);
+              continue;
+            }
+            if (typeof repoValue !== "object" || repoValue === null || Array.isArray(repoValue)) {
+              errors.push(`workspace.repositories.${repoId} must be an object`);
+              continue;
+            }
+
+            const repo = repoValue as Record<string, unknown>;
+            const validRepo: import("./preferences-types.js").WorkspaceRepositoryPreference = { path: "" };
+
+            if (typeof repo.path === "string" && repo.path.trim().length > 0) {
+              validRepo.path = repo.path.trim();
+              if (isAbsolute(validRepo.path)) {
+                errors.push(`workspace.repositories.${repoId}.path must be a relative path`);
+                continue;
+              }
+              const normalizedPathKey = validRepo.path.replace(/\\/g, "/").replace(/\/+$/, "").toLowerCase();
+              if (normalizedPaths.has(normalizedPathKey)) {
+                errors.push(`workspace.repositories contains duplicate path: ${validRepo.path}`);
+                continue;
+              }
+              normalizedPaths.add(normalizedPathKey);
+            } else {
+              errors.push(`workspace.repositories.${repoId}.path must be a non-empty string`);
+              continue;
+            }
+
+            if (repo.role !== undefined) {
+              if (typeof repo.role === "string" && repo.role.trim().length > 0) validRepo.role = repo.role.trim();
+              else errors.push(`workspace.repositories.${repoId}.role must be a non-empty string`);
+            }
+
+            if (repo.verification !== undefined) {
+              if (
+                Array.isArray(repo.verification) &&
+                repo.verification.every((v) => typeof v === "string" && v.trim().length > 0)
+              ) {
+                validRepo.verification = repo.verification.map((v) => v.trim());
+              } else {
+                errors.push(`workspace.repositories.${repoId}.verification must be an array of non-empty strings`);
+              }
+            }
+
+            if (repo.commit_policy !== undefined) {
+              if (repo.commit_policy === "auto" || repo.commit_policy === "skip") {
+                validRepo.commit_policy = repo.commit_policy;
+              } else {
+                errors.push(`workspace.repositories.${repoId}.commit_policy must be one of: auto, skip`);
+              }
+            }
+
+            const knownRepoKeys = new Set(["path", "role", "verification", "commit_policy"]);
+            for (const key of Object.keys(repo)) {
+              if (!knownRepoKeys.has(key)) {
+                warnings.push(`unknown workspace.repositories.${repoId} key "${key}" — ignored`);
+              }
+            }
+
+            validRepos[repoId] = validRepo;
+          }
+
+          if (Object.keys(validRepos).length > 0) {
+            validWorkspace.repositories = validRepos;
+          }
+        } else {
+          errors.push("workspace.repositories must be an object mapping repo ids to config");
+        }
+      }
+
+      const knownWorkspaceKeys = new Set(["mode", "repositories"]);
+      for (const key of Object.keys(workspace)) {
+        if (!knownWorkspaceKeys.has(key)) {
+          warnings.push(`unknown workspace key "${key}" — ignored`);
+        }
+      }
+
+      if (Object.keys(validWorkspace).length > 0) {
+        validated.workspace = validWorkspace;
+      }
+    } else {
+      errors.push("workspace must be an object");
+    }
+  }
   // ─── Enhanced Verification ──────────────────────────────────────────────────
   if (preferences.enhanced_verification !== undefined) {
     if (typeof preferences.enhanced_verification === "boolean") {

package/src/resources/extensions/gsd/preferences.ts

@@ -55,6 +55,8 @@ export type {
   UokTurnActionMode,
   UokPreferences,
   CodebaseMapPreferences,
+  ClaudeCodeMcpPerModelEntry,
+  ClaudeCodeMcpConfig,
   GSDPreferences,
   LoadedGSDPreferences,
   SkillResolution,
@@ -99,6 +101,9 @@ export {
   resolveDisabledModelProvidersFromPreferences,
 } from "./preferences-models.js";
 
+// ─── Re-exports: MCP ────────────────────────────────────────────────────────
+export { resolveModelMcpConfig } from "./preferences-mcp.js";
+
 // ─── Path Constants & Getters ───────────────────────────────────────────────
 
 function globalPreferencesPath(): string {

package/src/resources/extensions/gsd/prompt-loader.ts

@@ -200,7 +200,7 @@ export function loadPrompt(name: string, vars: Record<string, string> = {}): str
     if (missing.length > 0) {
       throw new GSDError(
         GSD_PARSE_ERROR,
-        `loadPrompt("${name}"): template declares {{${missing.join("}}, {{")}}}} but no value was provided. ` +
+        `loadPrompt("${name}"): template declares {{${missing.join("}}, {{")}}} but no value was provided. ` +
         `This usually means the extension code in memory is older than the template on disk. ` +
         `Restart pi to reload the extension.`,
       );

package/src/resources/extensions/gsd/prompts/complete-milestone.md

@@ -57,7 +57,7 @@ Subagents report only; they do not write user source. Fold any findings into Dec
 **Success path** (all verifications passed):
 
 10. For each requirement whose status changed in step 9, call `gsd_requirement_update` with the requirement ID and updated `status` and `validation` fields — the tool regenerates `.gsd/REQUIREMENTS.md` automatically. Do this BEFORE completing the milestone so requirement updates are persisted.
-11. Update `.gsd/PROJECT.md`: use the `write` tool with `path: ".gsd/PROJECT.md"` and `content` containing the full updated document reflecting milestone completion and current project state. Do NOT use the `edit` tool for this — PROJECT.md is a full-document refresh.
+11. Refresh the project state through `gsd_summary_save` with `artifact_type: "PROJECT"` and the full updated project markdown as `content`; omit `milestone_id`. The tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`. Do not write or edit `.gsd/PROJECT.md` directly.
 12. Extract structured learnings from this milestone and persist them to the GSD memory store. Follow the procedure block immediately below — it writes `{{milestoneId}}-LEARNINGS.md` as the audit trail and persists Patterns, Lessons, and Decisions via `capture_thought` (categories: pattern, gotcha/convention, architecture). The memory store is the single source of truth for cross-session durable knowledge (ADR-013).
 
 {{extractLearningsSteps}}

package/src/resources/extensions/gsd/prompts/complete-slice.md

@@ -34,7 +34,7 @@ Use `subagent` only for fresh-context review when useful: reviewer for cross-cut
 12. Review the inlined task-summary excerpts for DECISIONS.md and KNOWLEDGE.md-worthy decisions, patterns, and gotchas. Read full `*-SUMMARY.md` files only when an excerpt is absent, truncated, or lacks the specific evidence needed for the slice narrative. Capture significant items with `capture_thought`; do not append knowledge files directly.
 13. When verification passes, call `gsd_slice_complete`. The DB-backed tool is the canonical write path. Do **not** manually write `{{sliceSummaryPath}}`. Do **not** manually write `{{sliceUatPath}}`. Do not edit roadmap checkboxes; the tool renders files and updates projections.
 14. Do not run git commands.
-15. Update `.gsd/PROJECT.md` with a full `write` only if the current project state needs refresh.
+15. If the current project state needs refresh, call `gsd_summary_save` with `artifact_type: "PROJECT"` and the full updated project markdown as `content`; omit `milestone_id`. Do not write or edit `.gsd/PROJECT.md` directly.
 
 **Autonomous execution:** no human is available. Do not call `ask_user_questions` or `secure_env_collect`; make reasonable assumptions and document them.
 

package/src/resources/extensions/gsd/prompts/discuss-headless.md

@@ -106,8 +106,8 @@ Directories use bare IDs. Files use ID-SUFFIX format. Titles live inside content
 
 In a single pass:
 1. `mkdir -p .gsd/milestones/{{milestoneId}}/slices`
-2. Write or update `.gsd/PROJECT.md` — use the **Project** output template below. Describe what the project is, its current state, and list the milestone sequence.
-3. Write or update `.gsd/REQUIREMENTS.md` — use the **Requirements** output template below. Confirm states, ownership, and traceability before roadmap creation.
+2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full Project template content. The tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`. Describe what the project is, its current state, and list the milestone sequence.
+3. Persist requirements with `gsd_requirement_save` or `gsd_requirement_update`, then call `gsd_summary_save` with `artifact_type: "REQUIREMENTS"` so the tool renders `.gsd/REQUIREMENTS.md` from DB rows. Confirm states, ownership, and traceability before roadmap creation.
 
 **Depth-Preservation Guidance for context.md:** Preserve the specification's exact terminology, emphasis, and framing. Do not flatten domain-specific language into generics. CONTEXT.md is downstream agents' only window into this spec.
 
@@ -120,8 +120,8 @@ In a single pass:
 
 Before emitting the ready phrase, verify in the CURRENT turn that you have:
 
-- [ ] Written `.gsd/PROJECT.md` (step 2)
-- [ ] Written `.gsd/REQUIREMENTS.md` (step 3)
+- [ ] Called `gsd_summary_save` for the PROJECT artifact (step 2)
+- [ ] Persisted requirements and called `gsd_summary_save` for the REQUIREMENTS artifact (step 3)
 - [ ] Written `{{contextPath}}` (step 4)
 - [ ] Called `gsd_plan_milestone` (step 5)
 
@@ -145,8 +145,8 @@ Next steps:
 #### Phase 1: Shared artifacts
 
 1. For each milestone, call `gsd_milestone_generate_id`; never invent IDs. Then `mkdir -p .gsd/milestones/<ID>/slices`.
-2. Write `.gsd/PROJECT.md` — use the **Project** output template below.
-3. Write `.gsd/REQUIREMENTS.md` — use the **Requirements** output template below. Capture Active, Deferred, Out of Scope, and any already Validated requirements. Later milestones may have provisional ownership where slice plans do not exist yet.
+2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full Project template content so the tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`.
+3. Persist requirements with `gsd_requirement_save` or `gsd_requirement_update`, then call `gsd_summary_save` with `artifact_type: "REQUIREMENTS"` so the tool renders `.gsd/REQUIREMENTS.md` from DB rows. Capture Active, Deferred, Out of Scope, and any already Validated requirements. Later milestones may have provisional ownership where slice plans do not exist yet.
 4. For any architectural or pattern decisions, call `gsd_decision_save` — the tool auto-assigns IDs and regenerates `.gsd/DECISIONS.md` automatically.
 
 #### Phase 2: Primary milestone
@@ -214,8 +214,8 @@ For single-milestone projects, do NOT write this file.
 
 Before emitting the ready phrase, verify in the CURRENT turn that you have:
 
-- [ ] Written `.gsd/PROJECT.md`
-- [ ] Written `.gsd/REQUIREMENTS.md`
+- [ ] Called `gsd_summary_save` for the PROJECT artifact
+- [ ] Persisted requirements and called `gsd_summary_save` for the REQUIREMENTS artifact
 - [ ] Written the primary milestone `CONTEXT.md`
 - [ ] Called `gsd_plan_milestone` for the primary milestone
 - [ ] Written `.gsd/DISCUSSION-MANIFEST.json` with `gates_completed === total`

package/src/resources/extensions/gsd/prompts/discuss.md

@@ -186,7 +186,7 @@ Research is advisory, not auto-binding. Use discussion output to identify table
 
 ## Capability Contract
 
-Before writing a roadmap, produce or update `.gsd/REQUIREMENTS.md`.
+Before writing a roadmap, persist requirements with `gsd_requirement_save` or `gsd_requirement_update`, then render `.gsd/REQUIREMENTS.md` through `gsd_summary_save` with `artifact_type: "REQUIREMENTS"`.
 
 Use it as the project's explicit capability contract.
 
@@ -226,8 +226,8 @@ Directories use bare IDs. Files use ID-SUFFIX format. Titles live inside file co
 
 Once the user is satisfied, in a single pass:
 1. `mkdir -p .gsd/milestones/{{milestoneId}}/slices`
-2. Write or update `.gsd/PROJECT.md` — use the **Project** output template below. Describe what the project is, its current state, and list the milestone sequence.
-3. Write or update `.gsd/REQUIREMENTS.md` — use the **Requirements** output template below. Confirm requirement states, ownership, and traceability before roadmap creation.
+2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full Project template content. The tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`. Describe what the project is, its current state, and list the milestone sequence.
+3. Persist requirements with `gsd_requirement_save` or `gsd_requirement_update`, then call `gsd_summary_save` with `artifact_type: "REQUIREMENTS"` so the tool renders `.gsd/REQUIREMENTS.md` from DB rows. Confirm requirement states, ownership, and traceability before roadmap creation.
 **Depth-Preservation Guidance for context.md:**
 When writing context.md, preserve the user's exact terminology, emphasis, and framing. Do not flatten nuance into generic summaries. If the user said "craft feel," write "craft feel," not "high-quality user experience." CONTEXT.md is downstream agents' only window into this conversation.
 
@@ -243,8 +243,8 @@ When writing CONTEXT.md, include discussion-layer sections: **Scope**, **Archite
 
 Before emitting the ready phrase, verify in the CURRENT turn that you have:
 
-- [ ] Written `.gsd/PROJECT.md` (step 2)
-- [ ] Written `.gsd/REQUIREMENTS.md` (step 3)
+- [ ] Called `gsd_summary_save` for the PROJECT artifact (step 2)
+- [ ] Persisted requirements and called `gsd_summary_save` for the REQUIREMENTS artifact (step 3)
 - [ ] Written `{{contextPath}}` (step 4)
 - [ ] Called `gsd_plan_milestone` (step 5)
 
@@ -270,8 +270,8 @@ Once the user confirms the milestone split:
 #### Phase 1: Shared artifacts
 
 1. For each milestone, call `gsd_milestone_generate_id`; never invent IDs. Then `mkdir -p .gsd/milestones/<ID>/slices`.
-2. Write `.gsd/PROJECT.md` — use the **Project** output template below.
-3. Write `.gsd/REQUIREMENTS.md` — use the **Requirements** output template below. Capture Active, Deferred, Out of Scope, and any already Validated requirements. Later milestones may have provisional ownership where slice plans do not exist yet.
+2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full Project template content so the tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`.
+3. Persist requirements with `gsd_requirement_save` or `gsd_requirement_update`, then call `gsd_summary_save` with `artifact_type: "REQUIREMENTS"` so the tool renders `.gsd/REQUIREMENTS.md` from DB rows. Capture Active, Deferred, Out of Scope, and any already Validated requirements. Later milestones may have provisional ownership where slice plans do not exist yet.
 4. For any architectural or pattern decisions made during discussion, call `gsd_decision_save` — the tool auto-assigns IDs and regenerates `.gsd/DECISIONS.md` automatically.
 
 #### Phase 2: Primary milestone
@@ -344,8 +344,8 @@ For single-milestone projects, do NOT write this file.
 
 Before emitting the ready phrase, verify in the CURRENT turn that you have:
 
-- [ ] Written `.gsd/PROJECT.md` (Phase 1)
-- [ ] Written `.gsd/REQUIREMENTS.md` (Phase 1)
+- [ ] Called `gsd_summary_save` for the PROJECT artifact (Phase 1)
+- [ ] Persisted requirements and called `gsd_summary_save` for the REQUIREMENTS artifact (Phase 1)
 - [ ] Written primary-milestone `CONTEXT.md` (Phase 2)
 - [ ] Called `gsd_plan_milestone` for the primary milestone (Phase 2)
 - [ ] Written `.gsd/DISCUSSION-MANIFEST.json` with `gates_completed === total` (Phase 3)

package/src/resources/extensions/gsd/prompts/forensics.md

@@ -50,11 +50,11 @@ GSD extension source: `{{gsdSourceDir}}`
 
 The journal is a structured event log for auto-mode iterations. Daily files contain JSONL:
 
-```
-{ ts: "ISO-8601", flowId: "UUID", seq: 0, eventType: "iteration-start", rule?: "rule-name", causedBy?: { flowId, seq }, data?: { unitId, status, ... } }
+```json
+{ ts: "ISO-8601", flowId: "UUID", seq: 0, eventType: "orchestrator-iteration-start", rule?: "rule-name", causedBy?: { flowId, seq }, data?: { unitId, status, ... } }
 ```
 
-Key events: `iteration-start/end`, `dispatch-match/stop`, `unit-start/end`, `terminal`, `guard-block`, `stuck-detected`, `milestone-transition`, worktree events. `flowId` groups one loop; `causedBy` links causal events; `seq` orders events. Trace stuck loops with `stuck-detected` -> `flowId`; guard blocks with `guard-block` and `data.reason`.
+Key orchestrator events: `orchestrator-iteration-start/end`, `orchestrator-dispatch-match/stop`, `orchestrator-guard-block`, `orchestrator-terminal`. Legacy loop and phase events (`iteration-start/end`, `dispatch-match/stop`, `unit-start/end`, `terminal`, `guard-block`, `stuck-detected`, `milestone-transition`) still appear for non-orchestrator paths, along with worktree events. `flowId` groups one loop; `causedBy` links causal events; `seq` orders events. Trace orchestrator stalls with `orchestrator-guard-block`/`orchestrator-dispatch-stop` and `data.reason`.
 
 ### Crash Lock Format (`auto.lock`)
 

package/src/resources/extensions/gsd/prompts/guided-discuss-project.md

@@ -1,6 +1,6 @@
 **Working directory:** `{{workingDirectory}}`. All file reads, writes, and shell commands MUST operate relative to this directory. Do NOT `cd` elsewhere. For `.gsd` files, use absolute paths rooted at `{{workingDirectory}}`, not `Glob`.
 
-Discuss the **project** as a whole: vision, users, anti-goals, constraints, and rough milestone sequence. Ask only real gray areas, then write `.gsd/PROJECT.md` with the **Project** template below. If a `GSD Skill Preferences` block exists, use it; artifact rules still apply.
+Discuss the **project** as a whole: vision, users, anti-goals, constraints, and rough milestone sequence. Ask only real gray areas, then persist the final Project template through `gsd_summary_save` with `artifact_type: "PROJECT"`. The tool renders `.gsd/PROJECT.md`; do not write the projection directly. If a `GSD Skill Preferences` block exists, use it; artifact rules still apply.
 
 This runs once before milestone discussion. Later milestones, requirements, and roadmaps depend on it.
 
@@ -34,7 +34,7 @@ After the opening answer, classify project shape as **`simple`** or **`complex`*
 
 **Default to `complex` when uncertain.** The user can override the verdict in plain text; if they do, accept it and proceed.
 
-Persist the verdict to PROJECT.md -> `## Project Shape`; downstream `discuss-requirements`, `discuss-milestone`, and `discuss-slice` read it from there.
+Persist the verdict through `gsd_summary_save` with `artifact_type: "PROJECT"` into `## Project Shape`; downstream `discuss-requirements`, `discuss-milestone`, and `discuss-slice` read the rendered projection.
 
 ### Before deeper rounds
 
@@ -95,7 +95,7 @@ If they clarify, absorb the correction and re-verify.
 
 The depth verification is the only required confirmation gate. Do not add a second "ready to proceed?" gate after it.
 
-**CRITICAL — Confirmation gate:** Do not write final PROJECT.md until the user selects the "(Recommended)" option (structured path) or explicitly confirms (plain-text path). If the user declines, cancels, does not respond, or the tool fails, re-ask.
+**CRITICAL — Confirmation gate:** Do not persist final PROJECT content until the user selects the "(Recommended)" option (structured path) or explicitly confirms (plain-text path). If the user declines, cancels, does not respond, or the tool fails, re-ask.
 
 ---
 
@@ -104,7 +104,7 @@ The depth verification is the only required confirmation gate. Do not add a seco
 Once the user confirms depth:
 
 1. Use the **Project** output template (inlined above).
-2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full project markdown as `content`; omit `milestone_id`. The tool writes `.gsd/PROJECT.md` and persists to DB. Preserve the user's terms and framing.
+2. Call `gsd_summary_save` with `artifact_type: "PROJECT"` and full project markdown as `content`; omit `milestone_id`. The tool persists the DB-backed PROJECT artifact and renders `.gsd/PROJECT.md`. Preserve the user's terms and framing.
 3. The `## Project Shape` section MUST contain `**Complexity:** simple` or `**Complexity:** complex` (matching the verdict you announced) plus a one-line `**Why:**` rationale. Downstream stages read this line.
 4. The `## Capability Contract` section MUST reference `.gsd/REQUIREMENTS.md` — that file does not yet exist; the next stage (`discuss-requirements`) will produce it.
 5. The `## Milestone Sequence` MUST list at least M001 with title and one-liner. Subsequent milestones may be listed as known intents; they will be elaborated in their own discuss-milestone stages.

package/src/resources/extensions/gsd/prompts/guided-discuss-requirements.md

@@ -1,6 +1,6 @@
 **Working directory:** `{{workingDirectory}}`. All file reads, writes, and shell commands MUST operate relative to this directory. Do NOT `cd` elsewhere. For `.gsd` files, use absolute paths rooted at `{{workingDirectory}}`, not `Glob`.
 
-Discuss **project-level requirements**. Read `.gsd/PROJECT.md` first; it is authoritative for vision, core value, anti-goals, and milestone sequence. Requirements must trace to it. Ask capability gray areas, then write `.gsd/REQUIREMENTS.md` using v2 `R###` format and the **Requirements** template.
+Discuss **project-level requirements**. Read `.gsd/PROJECT.md` first; it is the rendered project artifact for vision, core value, anti-goals, and milestone sequence. Requirements must trace to it. Ask capability gray areas, then persist requirements with `gsd_requirement_save` and render `.gsd/REQUIREMENTS.md` through `gsd_summary_save` using v2 `R###` format and the **Requirements** template.
 
 This runs once after `discuss-project` and before milestone work, creating the capability contract for milestones, slices, and verification.
 
@@ -25,7 +25,7 @@ Before your first action, print this banner verbatim in chat:
 3. If `.gsd/REQUIREMENTS.md` exists, read it as the working set.
 
 **Shape-dependent cadence:**
-- **`simple`**: one fast pass. Extract from PROJECT.md, ask 1-2 plain-text clarifiers only when class/status is ambiguous, then write REQUIREMENTS.md.
+- **`simple`**: one fast pass. Extract from PROJECT.md, ask 1-2 plain-text clarifiers only when class/status is ambiguous, then persist requirements through the DB-backed tools.
 - **`complex`**: multi-round questioning with structured 3-4-option questions where alternatives matter.
 
 ---
@@ -81,7 +81,7 @@ Before the wrap-up gate, verify: every milestone has an Active requirement; Core
 
 If they adjust, absorb and re-verify.
 
-**CRITICAL — Confirmation gate:** Do not write final REQUIREMENTS.md until explicit confirmation. Never rationalize past it.
+**CRITICAL — Confirmation gate:** Do not persist final REQUIREMENTS content until explicit confirmation. Never rationalize past it.
 
 ---
 

package/src/resources/extensions/gsd/prompts/plan-slice.md

@@ -26,7 +26,7 @@ Before planning, validate roadmap assumptions against code and dependency summar
 
 {{sourceFilePaths}}
 
-If slice research is inlined, trust it. Explore enough code to confirm paths, boundaries, and verification. Executors later get only task plans, slice excerpt, and prior summaries, so put required paths, steps, inputs, and outputs in task plans.
+If slice research is inlined, trust its architectural findings, but verify every concrete file path you place in task `inputs` or `expectedOutput` against the current tree or prior/same-task outputs. Explore enough code to confirm paths, boundaries, and verification. Executors later get only task plans, slice excerpt, and prior summaries, so put required paths, steps, inputs, and outputs in task plans.
 
 {{executorContextConstraints}}
 
@@ -39,10 +39,10 @@ If slice research is inlined, trust it. Explore enough code to confirm paths, bo
 5. Define slice verification before tasks. Non-trivial slices need real tests or executable assertions; boundary contracts need contract-exercising checks. Tests must not read .gitignore/gitignored paths such as `.gsd/`, `.planning/`, or `.audits/`.
 6. Include Threat Surface (Q3), Requirement Impact (Q4), proof level, observability, integration closure, Failure Modes (Q5), Load Profile (Q6), and Negative Tests (Q7) only where applicable.
 7. Right-size tasks. Simple slices can be one task; split only when context, ownership, or verification boundaries justify it.
-8. Each task needs a concrete title, Why / Files / Do / Verify / Done when, plus task-plan description, steps, must-haves, verification, inputs, and expected output. Inputs and Expected Output must include concrete backtick-wrapped paths. Use paths relative to `{{workingDirectory}}`; do not put absolute paths to the original checkout or any directory outside `{{workingDirectory}}` in `files`, `inputs`, `expectedOutput`, or verification commands. **`expected_output` must only list files the task actually creates or overwrites on disk.** Do NOT include files the task merely reads, verifies, or tests — those belong only in `inputs`. If a task is a pure verification or test task that produces no new files, its `expected_output` may be empty or limited to test-result artifacts (e.g. a log or assertion output). A file that does not yet exist on disk and is needed as an `input` must be produced by an earlier task's `expected_output` — if no prior task creates it, add a task before this one that does.
-9. Persist with `gsd_plan_slice` using goal, successCriteria, optional proofLevel/integrationClosure/observabilityImpact, and tasks. `gsd_plan_slice` handles task persistence transactionally and renders `{{outputPath}}` plus task plans; do not call `gsd_plan_task`. The DB-backed tool is the canonical write path. Do **not** rely on direct `PLAN.md` writes as the source of truth.
+8. Each task needs the exact `gsd_plan_slice.tasks[]` shape: `taskId`, `title`, `description`, `estimate`, `files`, `verify`, `inputs`, `expectedOutput`, and optional `observabilityImpact`. `description` should contain the Why / Do / Done-when narrative. `files`, `inputs`, and `expectedOutput` must be JSON arrays of strings, even when there is only one path (for example, `"inputs": ["src/index.ts"]`, never `"inputs": "src/index.ts"`). Use paths relative to `{{workingDirectory}}`; do not put absolute paths to the original checkout or any directory outside `{{workingDirectory}}` in `files`, `inputs`, `expectedOutput`, or verification commands. **`expectedOutput` must only list files the task actually creates or overwrites on disk.** Do NOT include files the task merely reads, verifies, or tests — those belong only in `inputs`. If a task is a pure verification or test task that produces no new files, `expectedOutput` may be `[]` or limited to test-result artifacts (e.g. a log or assertion output). A file that does not yet exist on disk and is needed as an `input` must be produced by an earlier task's `expectedOutput` — if no prior task creates it, add a task before this one that does.
+9. Persist with `gsd_plan_slice` using `milestoneId`, `sliceId`, `goal`, optional `successCriteria`/`proofLevel`/`integrationClosure`/`observabilityImpact`, and `tasks`. `gsd_plan_slice` handles task persistence transactionally and renders `{{outputPath}}` plus task plans; do not call `gsd_plan_task`. The DB-backed tool is the canonical write path. Do **not** rely on direct `PLAN.md` writes as the source of truth.
 10. Self-audit before finishing: goal/demo closure, requirement coverage, locked decisions, concrete paths, dependency order, wiring, scope size, proof truthfulness, feature completeness, and quality gates. Quality gates: non-trivial slices/tasks include specific Q3-Q7 coverage where applicable.
-11. If planning creates structural decisions, append them to `.gsd/DECISIONS.md`.
+11. If planning creates structural decisions, call `gsd_decision_save` for each; the tool persists the decision and regenerates `.gsd/DECISIONS.md`.
 12. {{commitInstruction}}
 
 The slice directory already exists. Do not mkdir.

package/src/resources/extensions/gsd/prompts/queue.md

@@ -114,10 +114,10 @@ Once the user is satisfied, in one pass for **each** new milestone:
 
 After all milestone directories and context files are written:
 
-3. Update `.gsd/PROJECT.md` by adding new milestones to the Milestone Sequence. Keep existing entries exactly as-is; only add new lines.
-4. If `.gsd/REQUIREMENTS.md` exists and the queued work introduces new in-scope capabilities or promotes Deferred items, update it.
-5. If discussion produced decisions relevant to existing work, append to `.gsd/DECISIONS.md`.
-6. Append to `.gsd/QUEUE.md`.
+3. Refresh project state through `gsd_summary_save` with `artifact_type: "PROJECT"` and full PROJECT content that includes the new milestones in the Milestone Sequence; omit `milestone_id`.
+4. If the queued work introduces new in-scope capabilities or promotes Deferred items, persist those changes with `gsd_requirement_save` or `gsd_requirement_update`, then call `gsd_summary_save` with `artifact_type: "REQUIREMENTS"` so `.gsd/REQUIREMENTS.md` renders from DB rows.
+5. If discussion produced decisions relevant to existing work, call `gsd_decision_save` for each decision; the tool regenerates `.gsd/DECISIONS.md`.
+6. If `.gsd/QUEUE.md` is maintained, update it only as an audit projection of queued intent. Runtime queue state must come from the DB-backed milestone/context tool calls above.
 7. {{commitInstruction}}
 
 **Do NOT write roadmaps for queued milestones.**

package/src/resources/extensions/gsd/prompts/reactive-execute.md

@@ -8,7 +8,7 @@
 
 You are executing **multiple tasks in parallel** for this slice. The task graph below shows which tasks are ready for simultaneous execution based on their input/output dependencies.
 
-**Critical rule:** Use the `subagent` tool in **parallel mode** to dispatch all ready tasks simultaneously. Each subagent gets a full `execute-task` prompt and is responsible for its own implementation, verification, task summary, and completion tool calls. The parent batch agent orchestrates, verifies, and records failures only when a dispatched task failed before it could leave its own summary behind.
+**Critical rule:** Use the `subagent` tool in **parallel mode** to dispatch all ready tasks simultaneously. Each subagent gets a task-specific execution packet (task plan + dependency carry-forward + completion contract) and is responsible for its own implementation, verification, task summary, and completion tool calls. The parent batch agent orchestrates, verifies, and records failures only when a dispatched task failed before it could leave its own summary behind.
 
 ## Task Dependency Graph
 

package/src/resources/extensions/gsd/prompts/refine-slice.md

@@ -64,10 +64,10 @@ Then:
 2. {{skillActivation}} Record the installed skills you expect executors to use in each task plan's `skills_used` frontmatter.
 3. Define slice-level verification: the objective stopping condition. Plan real test files with real assertions; for simple slices, executable commands are fine.
 4. For non-trivial slices, plan observability / proof level / integration closure, threat surface, and requirement impact. Omit entirely for simple slices.
-5. Decompose the slice into tasks that fit one context window each. Every task must have Why / Files / Do / Verify / Done-when, plus a task plan with description, steps, must-haves, verification, inputs (backtick-wrapped paths), and expected output (backtick-wrapped paths).
+5. Decompose the slice into tasks that fit one context window each. Every task passed to `gsd_plan_slice` must use the exact keys `taskId`, `title`, `description`, `estimate`, `files`, `verify`, `inputs`, `expectedOutput`, and optional `observabilityImpact`. Put Why / Do / Done-when detail in `description`. `files`, `inputs`, and `expectedOutput` must be JSON arrays of strings, even for one path (for example, `"expectedOutput": ["src/index.ts"]`, never `"expectedOutput": "src/index.ts"`).
 6. **Persist planning state through `gsd_plan_slice`.** Call it with the full payload. The tool writes to the DB and renders `{{outputPath}}` and `{{slicePath}}/tasks/T##-PLAN.md` automatically. Do NOT rely on direct `PLAN.md` writes.
 7. **Self-audit the plan.** If every task were completed exactly as written, the slice goal/demo should be true. Every must-have maps to a task. Inputs and Expected Output are backtick-wrapped file paths.
-8. If refinement produced structural decisions that diverge from the sketch, append them to `.gsd/DECISIONS.md`.
+8. If refinement produced structural decisions that diverge from the sketch, call `gsd_decision_save` for each; the tool persists the decision and regenerates `.gsd/DECISIONS.md`.
 9. {{commitInstruction}}
 
 The slice directory and tasks/ subdirectory already exist. Do NOT mkdir.

package/src/resources/extensions/gsd/prompts/rewrite-docs.md

@@ -23,7 +23,7 @@ An override was issued by the user that changes a fundamental decision or approa
    - For DECISIONS.md: append a new decision entry documenting the override and why. Do NOT delete prior decisions — mark them as superseded with a note.
    - For slice plans (S##-PLAN.md): update Goal, Demo, and Verification sections if affected. Update Files Likely Touched if the override changes scope. Do NOT modify completed task entries.
    - For REQUIREMENTS.md: update requirement descriptions if the override changes what "done" means, but do not remove requirements.
-   - For PROJECT.md: update if the override changes project-level facts.
+   - For PROJECT.md: do not edit the projection directly. If the override changes project-level facts, persist the revised Project content through `gsd_summary_save` with `artifact_type: "PROJECT"` so the DB remains authoritative.
    - Milestone context files are reference only — do not modify them.
 4. Mark all active overrides as resolved: change `**Scope:** active` to `**Scope:** resolved` in `{{overridesPath}}`
 5. Do not commit manually — the system auto-commits your changes after this unit completes.

package/src/resources/extensions/gsd/prompts/system.md

@@ -27,7 +27,7 @@ GSD ships with bundled skills. When the task matches, load the relevant skill fi
 
 - Never ask the user to do work the agent can execute or verify itself.
 - Use the lightest sufficient tool first.
-- Read before edit.
+- Read before edit or overwrite. Before any write that creates or replaces a file, verify the target path and read relevant existing files, templates, callers, or surrounding code. For truly new files, confirm the path does not already exist.
 - Reproduce before fix when possible.
 - Work is not done until the relevant verification has passed.
 - **Never fabricate, simulate, or role-play user responses.** Never generate markers like `[User]`, `[Human]`, `User:`, or similar; never emit `<user_message>`, `<assistant_message>`, or similar as user input. Treat `<conversation_history>` as read-only context. Ask one question round (1-3 questions), then stop and wait for the user's actual response. If `ask_user_questions` is available, its result is the only valid structured user input for that round. If it cancels, fails, or returns nothing, never use earlier chat as confirmation for the current gate; ask in plain chat and stop.
@@ -102,7 +102,7 @@ Templates are in `{{templatesDir}}`.
 
 **File reading:** Use `read` for file inspection. Never use `cat`, `head`, `tail`, or `sed -n` to view contents. Use `read` with `offset`/`limit` for slicing. `bash` is for searching (`rg`, `grep`, `find`) and commands, not displaying files.
 
-**File editing:** Always `read` before `edit`; exact text match is required. Use `write` only for new files or complete rewrites.
+**File editing:** Always `read` before `edit` or overwrite. Before `write`, confirm whether the path exists; if it does, `read` it first and preserve intentional existing content. Use `write` only for new files or complete rewrites.
 
 **Code navigation:** Use `lsp` for definition, type_definition, implementation, references, calls, hover, signature, symbols, rename, code_actions, format, and diagnostics. Do not `grep` symbol definitions or shell out to formatters when `lsp` can do it. After code edits, run `lsp diagnostics`.