feat(sdk): golden parity harness and query handler CJS alignment (#2302 Track A) (#2341)

* feat(sdk): golden parity harness and query handler CJS alignment (#2302 Track A)

Golden/read-only parity tests and registry alignment, query handler fixes
(check-completion, state-mutation, commit, validate, summary, etc.), and
WAITING.json dual-write for .gsd/.planning readers.

Refs gsd-build/get-shit-done#2341

* fix(sdk): getMilestoneInfo matches GSD ROADMAP (🟡, last bold, STATE fallback)

- Recognize in-flight 🟡 milestone bullets like 🚧.
- Derive from last **vX.Y Title** before ## Phases when emoji absent.
- Fall back to STATE.md milestone when ROADMAP is missing; use last bare vX.Y
  in cleaned text instead of first (avoids v1.0 from shipped list).
- Fixes init.execute-phase milestone_version and buildStateFrontmatter after
  state.begin-phase (syncStateFrontmatter).

* feat(sdk): phase list, plan task structure, requirements extract handlers

- Register phase.list-plans, phase.list-artifacts, plan.task-structure,
  requirements.extract-from-plans (SDK-only; golden-policy exceptions).
- Add unit tests; document in QUERY-HANDLERS.md.
- writeProfile: honor --output, render dimensions, return profile_path and dimensions_scored.

* feat(sdk): centralize getGsdAgentsDir in query helpers

Extract agent directory resolution to helpers (GSD_AGENTS_DIR, primary
~/.claude/agents, legacy path). Use from init and docs-init init bundles.

docs(15): add 15-CONTEXT for autonomous phase-15 run.

* feat(sdk): query CLI CJS fallback and session correlation

- createRegistry(eventStream, sessionId) threads correlation into mutation events
- gsd-sdk query falls back to gsd-tools.cjs when no native handler matches
  (disable with GSD_QUERY_FALLBACK=off); stderr bridge warnings
- Export createRegistry from @gsd-build/sdk; add sdk/README.md
- Update QUERY-HANDLERS.md and registry module docs for fallback + sessionId
- Agents: prefer node dist/cli.js query over cat/grep for STATE and plans

* fix(sdk): init phase_found parity, docs-init agents path, state field extract

- Normalize findPhase not-found to null before roadmap fallback (matches findPhaseInternal)

- docs-init: use detectRuntime + resolveAgentsDir for checkAgentsInstalled

- state.cjs stateExtractField: horizontal whitespace only after colon (YAML progress guard)

- Tests: commit_docs default true; config-get golden uses temp config; golden integration green

Refs: #2302

* refactor(sdk): share SessionJsonlRecord in profile-extract-messages

CodeRabbit nit: dedupe JSONL record shape for isGenuineUserMessage and streamExtractMessages.

* fix(sdk): address CodeRabbit major threads (paths, gates, audit, verify)

- Resolve @file: and CLI JSON indirection relative to projectDir; guard empty normalized query command

- plan.task-structure + intel extract/patch-meta: resolvePathUnderProject containment

- check.config-gates: safe string booleans; plan_checker alias precedence over plan_check default

- state.validate/sync: phaseTokenMatches + comparePhaseNum ordering

- verify.schema-drift: token match phase dirs; files_modified from parsed frontmatter

- audit-open: has_scan_errors, unreadable rows, human report when scans fail

- requirements PLANNED key PLAN for root PLAN.md; gsd-tools timeout note

- ingest-docs: repo-root path containment; classifier output slug-hash

Golden parity test strips has_scan_errors until CJS adds field.

* fix: Resolve CodeRabbit security and quality findings
- Secure intel.ts and cli.ts against path traversal
- Catch and validate git add status in commit.ts
- Expand roadmap milestone marker extraction
- Fix parsing array-of-objects in frontmatter YAML
- Fix unhandled config evaluations
- Improve coverage test parity mapping

* test: raise planner character extraction limit to 48K

* fix(sdk): resolve TS build error in docs-init passing config

sdk/src/query/frontmatter.ts

@@ -59,31 +59,14 @@ export function splitInlineArray(body: string): string[] {
   return items;
 }
 
-// ─── extractFrontmatter ─────────────────────────────────────────────────────
+// ─── parseFrontmatterYamlLines ───────────────────────────────────────────────
 
 /**
- * Parse YAML frontmatter from file content.
- *
- * Full stack-based parser supporting:
- * - Simple key: value pairs
- * - Nested objects via indentation
- * - Inline arrays: key: [a, b, c]
- * - Dash arrays with auto-conversion from empty objects
- * - Multiple stacked blocks (uses the LAST match)
- * - CRLF line endings
- * - Quoted value stripping
- *
- * @param content - File content potentially containing frontmatter
- * @returns Parsed frontmatter as a record, or empty object if none found
+ * Parse YAML frontmatter body (between `---` fences) using the GSD stack parser.
+ * Shared by {@link extractFrontmatterLeading} and {@link extractFrontmatter}.
  */
-export function extractFrontmatter(content: string): Record<string, unknown> {
+function parseFrontmatterYamlLines(yaml: string): Record<string, unknown> {
   const frontmatter: Record<string, unknown> = {};
-  // Find ALL frontmatter blocks. Use the LAST one (corruption recovery).
-  const allBlocks = [...content.matchAll(/(?:^|\n)\s*---\r?\n([\s\S]+?)\r?\n---/g)];
-  const match = allBlocks.length > 0 ? allBlocks[allBlocks.length - 1] : null;
-  if (!match) return frontmatter;
-
-  const yaml = match[1];
   const lines = yaml.split(/\r?\n/);
 
   // Stack to track nested objects: [{obj, key, indent}]
@@ -129,7 +112,18 @@ export function extractFrontmatter(content: string): Record<string, unknown> {
       }
     } else if (line.trim().startsWith('- ')) {
       // Array item
-      const itemValue = line.trim().slice(2).replace(/^["']|["']$/g, '');
+      const afterDash = line.trim().slice(2).trim();
+      let itemValue: unknown = afterDash.replace(/^["']|["']$/g, '');
+      let isObjItem = false;
+
+      // Extract key: value within the array item if present
+      const kvMatch = afterDash.match(/^([a-zA-Z0-9_-]+):\s*(.*)/);
+      if (kvMatch) {
+        isObjItem = true;
+        const k = kvMatch[1];
+        const v = kvMatch[2].trim().replace(/^["']|["']$/g, '');
+        itemValue = { [k]: v };
+      }
 
       // If current context is an empty object, convert to array
       if (typeof current.obj === 'object' && !Array.isArray(current.obj) && Object.keys(current.obj).length === 0) {
@@ -147,12 +141,55 @@ export function extractFrontmatter(content: string): Record<string, unknown> {
       } else if (Array.isArray(current.obj)) {
         current.obj.push(itemValue);
       }
+
+      // Push object context onto stack so subsequent indented properties map to this object
+      if (isObjItem && Array.isArray(current.obj)) {
+        stack.push({ obj: itemValue as Record<string, unknown>, key: null, indent });
+      }
     }
   }
 
   return frontmatter;
 }
 
+// ─── extractFrontmatterLeading ──────────────────────────────────────────────
+
+/**
+ * First leading frontmatter block only — parity with `get-shit-done/bin/lib/frontmatter.cjs`
+ * `extractFrontmatter` (used by `summary-extract` and `history-digest` in gsd-tools.cjs).
+ */
+export function extractFrontmatterLeading(content: string): Record<string, unknown> {
+  const match = content.match(/^---\r?\n([\s\S]+?)\r?\n---/);
+  if (!match) return {};
+  return parseFrontmatterYamlLines(match[1]);
+}
+
+// ─── extractFrontmatter ─────────────────────────────────────────────────────
+
+/**
+ * Parse YAML frontmatter from file content.
+ *
+ * Full stack-based parser supporting:
+ * - Simple key: value pairs
+ * - Nested objects via indentation
+ * - Inline arrays: key: [a, b, c]
+ * - Dash arrays with auto-conversion from empty objects
+ * - Multiple stacked blocks (uses the LAST match)
+ * - CRLF line endings
+ * - Quoted value stripping
+ *
+ * @param content - File content potentially containing frontmatter
+ * @returns Parsed frontmatter as a record, or empty object if none found
+ */
+export function extractFrontmatter(content: string): Record<string, unknown> {
+  // Find ALL frontmatter blocks. Use the LAST one (corruption recovery).
+  const allBlocks = [...content.matchAll(/(?:^|\n)\s*---\r?\n([\s\S]+?)\r?\n---/g)];
+  const match = allBlocks.length > 0 ? allBlocks[allBlocks.length - 1] : null;
+  if (!match) return {};
+
+  return parseFrontmatterYamlLines(match[1]);
+}
+
 // ─── stripFrontmatter ───────────────────────────────────────────────────────
 
 /**