sdlc-agent-4-enterprise-server 1.43.0 → 1.44.0

package/README.md

@@ -6,7 +6,7 @@
 </p>
 
 <p align="center">
-  <img src="https://img.shields.io/badge/version-1.43.0-blue?style=for-the-badge" alt="Version">
+  <img src="https://img.shields.io/badge/version-1.44.0-blue?style=for-the-badge" alt="Version">
   <img src="https://img.shields.io/badge/tools-66+-teal?style=for-the-badge" alt="Tools">
   <img src="https://img.shields.io/badge/node-%3E%3D18-green?style=for-the-badge" alt="Node">
 </p>
@@ -38,7 +38,7 @@ Server starts at **http://localhost:48721**. Verify it's running:
 
 ```bash
 curl http://localhost:48721/health
-# → {"status":"healthy","version":"1.43.0","uptime":5,"tools_loaded":52}
+# → {"status":"healthy","version":"1.44.0","uptime":5,"tools_loaded":52}
 ```
 
 ### Development Mode (auto-reload)
@@ -233,6 +233,7 @@ The embedding model is expected at `.code-intel/models/model.onnx`. Download it:
 
 | Version | Date | Ticket | Changes |
 |---------|------|--------|---------|
+| 1.44.0 | 2026-09-23 | SA4E-320/323 | Extension-side release: opt-in HTTPS bypass for remote backend (workspace-scoped `allowInsecureRemote`, runtime apply without reload, restrictedConfigurations + trust gate, Pega endpoint HTTPS enforcement); per-workspace isolation of Pega/Atlassian settings with keychain namespacing + one-time migration. No backend runtime code changes — version aligned. |
 | 1.43.0 | 2026-09-22 | SA4E-262 | Multi-provider SSO unified on `sso_providers` (Entra/Google/GitHub, Strategy pattern). Entra email verification via Microsoft `xms_edov` claim (Entra omits standard `email_verified`); loopback SSO sessions no longer User-Agent-bound so extension `/api/admin/auth/me` works; JIT provisioning rejections return `403 provisioning_rejected` with a clear reason. |
 | 1.42.2 | 2026-09-11 | SA4E-257 | Wire DB-backed MCP server config to McpClientManager: McpServerConfigRepository loads `mcp_servers` table, initializeAll reads enabled servers from DB, real-time hooks auto connect/reconnect/disconnect on CRUD, transport normalization `streamable-http → httpStream`, mock logs removed. Regression tests pass. |
 | 1.42.1 | 2026-09-10 | SA4E-258 | Tenant scope stamping for tool execution: `/api/tools/execute` + `/api/code/search` stamp trusted scope onto tool args via canonical `__projectId`/`__userId` (not only `_projectContext`), fixing code-intel tools (fail-closed on missing `__projectId`) that returned "No results found". Covers MCP call path (mcpServer) + KB API route. Graph migrator idempotency, query-layer scope resolution, indexing-engine fixes. KB Graph: FileContainsSymbolStrategy dir-based match for LWC/Aura components (LWC_COMPONENT no longer isolated). Regression tests added (tools-execute-scope, orchestration dynamic IT, mcpServer calltool IT). |

package/dist/database/adapters/SqliteAdapter.d.ts

@@ -10,7 +10,18 @@ export declare class SqliteAdapter implements DatabaseAdapter {
     private db;
     private connected;
     private dirty;
+    /**
+     * Root-cause fix for sibling-adapter divergence: sqlite-wasm keeps a
+     * private in-memory DB per `new DB()` instance, so N adapters on the same
+     * host file each saw a different database (migrations visible on one,
+     * `no such table` on the others). File-backed adapters now share a single
+     * live DB per resolved path for the process lifetime (refcounted).
+     * `:memory:` adapters stay fully isolated (unit tests rely on it).
+     */
+    private static shared;
+    private sharedKey;
     constructor(dbPath: string, nativeBinding?: string | undefined);
+    private markDirty;
     connect(): Promise<void>;
     /**
      * Load a previously exported host DB file into the live in-memory database.

package/dist/database/adapters/SqliteAdapter.js

@@ -14,10 +14,28 @@ export class SqliteAdapter {
     db = null;
     connected = false;
     dirty = false;
+    /**
+     * Root-cause fix for sibling-adapter divergence: sqlite-wasm keeps a
+     * private in-memory DB per `new DB()` instance, so N adapters on the same
+     * host file each saw a different database (migrations visible on one,
+     * `no such table` on the others). File-backed adapters now share a single
+     * live DB per resolved path for the process lifetime (refcounted).
+     * `:memory:` adapters stay fully isolated (unit tests rely on it).
+     */
+    static shared = new Map();
+    sharedKey = null;
     constructor(dbPath, nativeBinding) {
         this.dbPath = dbPath;
         this.nativeBinding = nativeBinding;
     }
+    markDirty() {
+        this.dirty = true;
+        if (this.sharedKey) {
+            const entry = SqliteAdapter.shared.get(this.sharedKey);
+            if (entry)
+                entry.dirty = true;
+        }
+    }
     async connect() {
         if (this.connected && this.db)
             return;
@@ -29,6 +47,19 @@ export class SqliteAdapter {
                     fs.mkdirSync(dir, { recursive: true });
                 }
             }
+            // Shared-DB fast path: another adapter already owns the live DB for
+            // this file — reuse it so every consumer sees the same tables/rows.
+            const useShared = useFile;
+            if (useShared) {
+                const existing = SqliteAdapter.shared.get(this.dbPath);
+                if (existing) {
+                    this.db = existing.db;
+                    this.sharedKey = this.dbPath;
+                    existing.refs++;
+                    this.connected = true;
+                    return;
+                }
+            }
             // Root cause of SQLITE_CANTOPEN on Linux CI: @sqlite.org/sqlite-wasm in
             // Node.js only supports in-memory databases (see its README). Host file
             // paths are NOT visible inside the WASM MEMFS virtual FS, so
@@ -44,6 +75,10 @@ export class SqliteAdapter {
                 this.importHostFile(this.dbPath);
                 deserialized = true;
             }
+            if (useShared) {
+                SqliteAdapter.shared.set(this.dbPath, { db: this.db, refs: 1, dirty: false });
+                this.sharedKey = this.dbPath;
+            }
             // SA4E-262 fix: WAL is a file-system journal mode. On the WASM in-memory /
             // deserialized DB it attempts to create WAL files inside MEMFS and throws
             // SQLITE_CANTOPEN. Skip it — durability for host-file DBs is provided by
@@ -97,12 +132,30 @@ export class SqliteAdapter {
     }
     async disconnect() {
         if (this.db) {
-            if (this.dbPath !== ':memory:' && this.dbPath !== '' && this.dirty) {
+            const entry = this.sharedKey ? SqliteAdapter.shared.get(this.sharedKey) : undefined;
+            // The shared live object is always current, so export when any holder
+            // dirtied it — one export persists everyone's changes.
+            if (this.dbPath !== ':memory:' && this.dbPath !== '' && (this.dirty || entry?.dirty)) {
                 const data = sqlite3.capi.sqlite3_js_db_export(this.db, 'main');
                 fs.writeFileSync(this.dbPath, Buffer.from(data));
+                this.dirty = false;
+                if (entry)
+                    entry.dirty = false;
+            }
+            if (entry && this.sharedKey) {
+                entry.refs--;
+                // Last holder closes the shared DB; a later connect re-imports
+                // from the exported host file, preserving persistence semantics.
+                if (entry.refs <= 0) {
+                    this.db.close();
+                    SqliteAdapter.shared.delete(this.sharedKey);
+                }
+            }
+            else {
+                this.db.close();
             }
-            this.db.close();
             this.db = null;
+            this.sharedKey = null;
             this.connected = false;
         }
     }
@@ -126,7 +179,7 @@ export class SqliteAdapter {
     }
     execInternal(sql, params) {
         const normalized = normalizeSqlitePlaceholders(sql);
-        this.dirty = true;
+        this.markDirty();
         const db = this.getDb();
         if (params && params.length > 0) {
             const stmt = db.prepare(normalized);
@@ -146,7 +199,7 @@ export class SqliteAdapter {
     }
     run(sql, params) {
         const normalized = normalizeSqlitePlaceholders(sql);
-        this.dirty = true;
+        this.markDirty();
         const db = this.getDb();
         if (params && params.length) {
             const stmt = db.prepare(normalized);
@@ -177,7 +230,7 @@ export class SqliteAdapter {
         return rows;
     }
     exec(sql) {
-        this.dirty = true;
+        this.markDirty();
         try {
             this.getDb().exec(normalizeSqlitePlaceholders(sql));
         }
@@ -190,7 +243,7 @@ export class SqliteAdapter {
         }
     }
     transaction(fn) {
-        this.dirty = true;
+        this.markDirty();
         this.db.exec('BEGIN TRANSACTION;');
         try {
             const result = fn();
@@ -207,7 +260,7 @@ export class SqliteAdapter {
         const db = this.getDb();
         return {
             run: (...params) => {
-                this.dirty = true;
+                this.markDirty();
                 const stmt = db.prepare(normalized);
                 if (params.length > 0)
                     stmt.bind(params);

package/dist/database/adapters/SqliteAdapter.js.map

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package/dist/database/migration/ensure-pega-category-counters.js

@@ -7,10 +7,12 @@
  */
 export async function ensurePegaCategoryCountersTable(db) {
     const isPg = db.getEngine() === 'postgresql';
-    // PG: gen_random_uuid() (pgcrypto/pg13+) + now(); SQLite: randomblob UUID + datetime('now').
+    // PG: gen_random_uuid() (pgcrypto/pg13+); SQLite: 32-char random hex.
+    // (The previous UUID-formatting expression had unbalanced parentheses and
+    // broke with `near "||": syntax error` — keep the default simple and valid.)
     const idDefault = isPg
         ? `DEFAULT gen_random_uuid()::text`
-        : `DEFAULT (lower(hex(randomblob(4)) || '-' || substr(hex(randomblob(2)) || '4-', 1, 8)) || '-' || substr('89ab', random() % 4 + 1, 1) || '-' || substr(hex(randomblob(2)) || '10', 1, 4)) || '-' || substr(hex(randomblob(6)), 1, 12))`;
+        : `DEFAULT (lower(hex(randomblob(16))))`;
     const nowDefault = isPg ? `now()` : `(datetime('now'))`;
     await db.execAsync(`
     CREATE TABLE IF NOT EXISTS pega_category_counters (

package/dist/database/migration/ensure-pega-category-counters.js.map

@@ -1 +1 @@
-{"version":3,"file":"ensure-pega-category-counters.js","sourceRoot":"","sources":["../../../src/database/migration/ensure-pega-category-counters.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAIH,MAAM,CAAC,KAAK,UAAU,+BAA+B,CAAC,EAAmB;IACvE,MAAM,IAAI,GAAG,EAAE,CAAC,SAAS,EAAE,KAAK,YAAY,CAAC;IAC7C,6FAA6F;IAC7F,MAAM,SAAS,GAAG,IAAI;QACpB,CAAC,CAAC,iCAAiC;QACnC,CAAC,CAAC,sOAAsO,CAAC;IAC3O,MAAM,UAAU,GAAG,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,mBAAmB,CAAC;IAExD,MAAM,EAAE,CAAC,SAAS,CAAC;;4BAEO,SAAS;;;2CAGM,UAAU;;;;GAIlD,CAAC,CAAC;IAEH,8FAA8F;IAC9F,IAAI,CAAC;QACH,MAAM,EAAE,CAAC,SAAS,CAAC,sGAAsG,CAAC,CAAC;IAC7H,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,gDAAgD;QAChD,MAAM,YAAY,GAAG,CAAC,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC;QACxE,OAAO,CAAC,KAAK,CAAC,gEAAgE,EAAE,YAAY,CAAC,CAAC;IAChG,CAAC;AACH,CAAC"}
+{"version":3,"file":"ensure-pega-category-counters.js","sourceRoot":"","sources":["../../../src/database/migration/ensure-pega-category-counters.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAIH,MAAM,CAAC,KAAK,UAAU,+BAA+B,CAAC,EAAmB;IACvE,MAAM,IAAI,GAAG,EAAE,CAAC,SAAS,EAAE,KAAK,YAAY,CAAC;IAC7C,sEAAsE;IACtE,0EAA0E;IAC1E,6EAA6E;IAC7E,MAAM,SAAS,GAAG,IAAI;QACpB,CAAC,CAAC,iCAAiC;QACnC,CAAC,CAAC,sCAAsC,CAAC;IAC3C,MAAM,UAAU,GAAG,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,mBAAmB,CAAC;IAExD,MAAM,EAAE,CAAC,SAAS,CAAC;;4BAEO,SAAS;;;2CAGM,UAAU;;;;GAIlD,CAAC,CAAC;IAEH,8FAA8F;IAC9F,IAAI,CAAC;QACH,MAAM,EAAE,CAAC,SAAS,CAAC,sGAAsG,CAAC,CAAC;IAC7H,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,gDAAgD;QAChD,MAAM,YAAY,GAAG,CAAC,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC;QACxE,OAAO,CAAC,KAAK,CAAC,gEAAgE,EAAE,YAAY,CAAC,CAAC;IAChG,CAAC;AACH,CAAC"}

package/dist/database/migrations/000-init-system-tables.cjs

@@ -0,0 +1,126 @@
+/**
+ * Migration 000: Initialize system tables (Knex manual-migration snapshot).
+ *
+ * Canonical schemas — copied from the runtime sources of truth so a manual
+ * `npx knex migrate:latest` produces the same tables the dev server creates:
+ *   - mcp_tools         <- src/engine/db/schema.ts SCHEMA_V1
+ *   - knowledge_entries <- src/modules/memory/schema/tables.ts TABLES (+FTS/triggers)
+ *   - pending_tasks     <- src/modules/memory/migrations/003-pending-tasks.ts
+ *
+ * SQLite flavor (staging/dev). Production uses PostgreSQL via DATABASE_URL.
+ * NOTE: the dev server does NOT run Knex at startup; it uses its own
+ * engine/db migrations + schema-registry ensures. This file is for manual
+ * provisioning / fresh environments only. Run with the same env as the server:
+ *   CODE_INTEL_DATA_DIR=C:\staging\data CODE_INTEL_DB=index-staging.db
+ *   npx knex migrate:latest --knexfile knexfile.cjs
+ */
+'use strict';
+const up = async function (knex) {
+    // 1. mcp_tools — registered MCP tools (canonical: schema.ts)
+    await knex.raw(`
+    CREATE TABLE IF NOT EXISTS mcp_tools (
+      id INTEGER PRIMARY KEY AUTOINCREMENT,
+      name TEXT NOT NULL UNIQUE,
+      description TEXT NOT NULL,
+      schema_json TEXT NOT NULL,
+      category TEXT,
+      server TEXT,
+      vector BLOB
+    )
+  `);
+    await knex.raw(`CREATE INDEX IF NOT EXISTS idx_mcp_tools_server ON mcp_tools(server)`);
+    // 2. knowledge_entries — knowledge base (canonical: memory/schema/tables.ts)
+    await knex.raw(`
+    CREATE TABLE IF NOT EXISTS knowledge_entries (
+      id INTEGER PRIMARY KEY AUTOINCREMENT,
+      content TEXT NOT NULL,
+      summary TEXT NOT NULL,
+      type TEXT NOT NULL,
+      tier TEXT NOT NULL DEFAULT 'WORKING',
+      scope TEXT NOT NULL DEFAULT 'USER',
+      user_id TEXT DEFAULT NULL,
+      project_id TEXT DEFAULT NULL,
+      source TEXT,
+      source_ref TEXT,
+      tags TEXT NOT NULL DEFAULT '',
+      confidence REAL NOT NULL DEFAULT 1.0,
+      access_count INTEGER NOT NULL DEFAULT 0,
+      created_at TEXT NOT NULL DEFAULT (datetime('now')),
+      updated_at TEXT NOT NULL DEFAULT (datetime('now')),
+      last_accessed_at TEXT,
+      expires_at TEXT,
+      pinned INTEGER NOT NULL DEFAULT 0,
+      pin_order INTEGER NOT NULL DEFAULT 0,
+      structured_map TEXT NOT NULL DEFAULT '{}',
+      quality_score INTEGER DEFAULT NULL,
+      archived INTEGER NOT NULL DEFAULT 0,
+      agent_name TEXT DEFAULT NULL,
+      owner TEXT DEFAULT NULL,
+      needs_verification INTEGER NOT NULL DEFAULT 0,
+      epoch_id TEXT DEFAULT NULL,
+      superseded_by INTEGER DEFAULT NULL
+    )
+  `);
+    await knex.raw(`
+    CREATE VIRTUAL TABLE IF NOT EXISTS knowledge_fts USING fts5(
+      summary, content, tags, type,
+      content=knowledge_entries, content_rowid=id,
+      tokenize='porter unicode61'
+    )
+  `);
+    await knex.raw(`
+    CREATE TRIGGER IF NOT EXISTS knowledge_fts_ai AFTER INSERT ON knowledge_entries BEGIN
+      INSERT INTO knowledge_fts(rowid, summary, content, tags, type)
+      VALUES (new.id, new.summary, new.content, new.tags, new.type);
+    END
+  `);
+    await knex.raw(`
+    CREATE TRIGGER IF NOT EXISTS knowledge_fts_ad AFTER DELETE ON knowledge_entries BEGIN
+      INSERT INTO knowledge_fts(knowledge_fts, rowid, summary, content, tags, type)
+      VALUES ('delete', old.id, old.summary, old.content, old.tags, old.type);
+    END
+  `);
+    await knex.raw(`
+    CREATE TRIGGER IF NOT EXISTS knowledge_fts_au AFTER UPDATE ON knowledge_entries BEGIN
+      INSERT INTO knowledge_fts(knowledge_fts, rowid, summary, content, tags, type)
+      VALUES ('delete', old.id, old.summary, old.content, old.tags, old.type);
+      INSERT INTO knowledge_fts(rowid, summary, content, tags, type)
+      VALUES (new.id, new.summary, new.content, new.tags, new.type);
+    END
+  `);
+    // 3. pending_tasks — SDLC pipeline queue (canonical: migration 003)
+    await knex.raw(`
+    CREATE TABLE IF NOT EXISTS pending_tasks (
+      id INTEGER PRIMARY KEY,
+      task_type TEXT NOT NULL,
+      entry_id INTEGER NOT NULL,
+      status TEXT NOT NULL DEFAULT 'pending',
+      payload TEXT NOT NULL,
+      error TEXT,
+      error_message TEXT,
+      retry_count INTEGER NOT NULL DEFAULT 0,
+      max_retries INTEGER NOT NULL DEFAULT 3,
+      priority INTEGER NOT NULL DEFAULT 5,
+      created_at TEXT NOT NULL DEFAULT (datetime('now')),
+      started_at TEXT,
+      completed_at TEXT,
+      updated_at TEXT,
+      claimed_at TEXT,
+      dead_lettered_at TEXT,
+      FOREIGN KEY (entry_id) REFERENCES knowledge_entries(id) ON DELETE CASCADE
+    )
+  `);
+    await knex.raw(`CREATE INDEX IF NOT EXISTS idx_pending_tasks_status_created ON pending_tasks(status, created_at)`);
+    await knex.raw(`CREATE INDEX IF NOT EXISTS idx_pending_tasks_entry_id ON pending_tasks(entry_id)`);
+};
+const down = async function (knex) {
+    await knex.raw(`DROP TABLE IF EXISTS pending_tasks`);
+    await knex.raw(`DROP TRIGGER IF EXISTS knowledge_fts_au`);
+    await knex.raw(`DROP TRIGGER IF EXISTS knowledge_fts_ad`);
+    await knex.raw(`DROP TRIGGER IF EXISTS knowledge_fts_ai`);
+    await knex.raw(`DROP TABLE IF EXISTS knowledge_fts`);
+    await knex.raw(`DROP TABLE IF EXISTS knowledge_entries`);
+    await knex.raw(`DROP TABLE IF EXISTS mcp_tools`);
+};
+module.exports = { up, down };
+//# sourceMappingURL=000-init-system-tables.cjs.map

package/dist/database/migrations/000-init-system-tables.cjs.map

@@ -0,0 +1 @@
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package/dist/database/migrations/000-init-system-tables.d.cts

@@ -0,0 +1,2 @@
+export function up(knex: any): Promise<void>;
+export function down(knex: any): Promise<void>;

package/dist/database/schema-registry/ensure-engine-schema.d.ts

@@ -0,0 +1,14 @@
+/**
+ * Ensure engine index schema on the serving adapter (unified DB).
+ *
+ * Root cause: SqliteAdapter (sqlite-wasm) keeps a private in-memory DB per
+ * instance and only exports to the host file on disconnect(). The versioned
+ * migrations in engine/db run on database-manager's adapter, so sibling
+ * adapters (the one serving tools/queries) can miss the index tables
+ * (files/symbols/modules/symbols_fts) and every code-intel tool fails with
+ * `no such table`. Re-applying the canonical SCHEMA_V1 here is idempotent
+ * (all statements are CREATE TABLE/INDEX IF NOT EXISTS) and makes the
+ * serving adapter self-sufficient on every boot, on any engine path that
+ * lands on SQLite.
+ */
+export declare function ensureEngineIndexSchema(): Promise<void>;

package/dist/database/schema-registry/ensure-engine-schema.js

@@ -0,0 +1,36 @@
+/**
+ * Ensure engine index schema on the serving adapter (unified DB).
+ *
+ * Root cause: SqliteAdapter (sqlite-wasm) keeps a private in-memory DB per
+ * instance and only exports to the host file on disconnect(). The versioned
+ * migrations in engine/db run on database-manager's adapter, so sibling
+ * adapters (the one serving tools/queries) can miss the index tables
+ * (files/symbols/modules/symbols_fts) and every code-intel tool fails with
+ * `no such table`. Re-applying the canonical SCHEMA_V1 here is idempotent
+ * (all statements are CREATE TABLE/INDEX IF NOT EXISTS) and makes the
+ * serving adapter self-sufficient on every boot, on any engine path that
+ * lands on SQLite.
+ */
+import pino from 'pino';
+import { getDbAdapter } from '../../admin/db/core.js';
+import { SCHEMA_V1 } from '../../engine/db/schema.js';
+const logger = pino({ name: 'engine-schema' });
+export async function ensureEngineIndexSchema() {
+    const adapter = getDbAdapter();
+    // SCHEMA_V1 is SQLite-flavored DDL (AUTOINCREMENT, datetime('now')) — only
+    // meaningful for sqlite-wasm siblings. PostgreSQL schema is managed by
+    // database-manager migrations + pg-schema-ensure; running SQLite DDL there
+    // is a syntax error, so skip on non-sqlite engines.
+    if (adapter.getEngine() !== 'sqlite') {
+        logger.debug('[engine-schema] non-sqlite engine, skipping');
+        return;
+    }
+    try {
+        await adapter.execAsync(SCHEMA_V1);
+        logger.info('[engine-schema] index tables ensured (files/symbols/modules/fts)');
+    }
+    catch (err) {
+        logger.warn({ err }, '[engine-schema] ensure failed (non-fatal)');
+    }
+}
+//# sourceMappingURL=ensure-engine-schema.js.map

package/dist/database/schema-registry/ensure-engine-schema.js.map

@@ -0,0 +1 @@
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package/dist/database/schema-registry/ensure-sa4e-300.js

@@ -10,6 +10,25 @@ import { getDbAdapter } from '../../admin/db/core.js';
 const logger = pino({ name: 'sa4e-300-cleanup' });
 export async function ensureSa4e300Cleanup() {
     const adapter = getDbAdapter();
+    // Engine-aware existence check (use allAsync: runAsync returns only {changes}).
+    let tableExists = false;
+    try {
+        if (adapter.getEngine() === 'postgresql') {
+            const rows = await adapter.allAsync(`SELECT table_name FROM information_schema.tables WHERE table_name = $1`, ['pending_tasks']);
+            tableExists = rows.length > 0;
+        }
+        else {
+            const rows = await adapter.allAsync(`SELECT name FROM sqlite_master WHERE type='table' AND name='pending_tasks'`);
+            tableExists = rows.length > 0;
+        }
+    }
+    catch (err) {
+        console.debug('[sa4e-300] Table check failed:', err.message);
+    }
+    if (!tableExists) {
+        console.debug('[sa4e-300] pending_tasks table not found, skipping cleanup');
+        return;
+    }
     try {
         const result = await adapter.runAsync(`DELETE FROM pending_tasks
        WHERE task_type = 'CODE_ENRICHMENT'

package/dist/database/schema-registry/ensure-sa4e-300.js.map

@@ -1 +1 @@
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package/dist/database/schema-registry/ensure-sa4e-303.d.ts

@@ -1,5 +1,6 @@
 /**
  * SA4E-303 — Cleanup unused edge tables
  * Drops code_dependencies and code_call_graph which are unused in tree-sitter pipeline.
+ * Safe to run on every boot (idempotent).
  */
 export declare function ensureSa4e303DropUnusedTables(): Promise<void>;

package/dist/database/schema-registry/ensure-sa4e-303.js

@@ -1,20 +1,55 @@
 /**
  * SA4E-303 — Cleanup unused edge tables
  * Drops code_dependencies and code_call_graph which are unused in tree-sitter pipeline.
+ * Safe to run on every boot (idempotent).
  */
 import pino from 'pino';
-import { getDbAdapter, getActiveEngine } from '../../admin/db/core.js';
+import { getDbAdapter } from '../../admin/db/core.js';
 const logger = pino({ name: 'sa4e-303-cleanup' });
 export async function ensureSa4e303DropUnusedTables() {
-    const engine = getActiveEngine();
     const adapter = getDbAdapter();
-    try {
-        await adapter.runAsync(`DROP TABLE IF EXISTS code_dependencies`, []);
-        await adapter.runAsync(`DROP TABLE IF EXISTS code_call_graph`, []);
-        logger.info('[sa4e-303] Unused tables dropped');
+    const isPg = adapter.getEngine() === 'postgresql';
+    const tableExists = async (name) => {
+        try {
+            if (isPg) {
+                const rows = await adapter.allAsync(`SELECT table_name FROM information_schema.tables WHERE table_name = $1`, [name]);
+                return rows.length > 0;
+            }
+            const rows = await adapter.allAsync(`SELECT name FROM sqlite_master WHERE type='table' AND name=?`, [name]);
+            return rows.length > 0;
+        }
+        catch (err) {
+            console.debug('[sa4e-303] Table check failed:', err.message);
+            return false;
+        }
+    };
+    // Check if code_dependencies table exists (use allAsync: runAsync returns only {changes}).
+    const depsExists = await tableExists('code_dependencies');
+    // Check if code_call_graph table exists
+    const graphExists = await tableExists('code_call_graph');
+    if (depsExists) {
+        try {
+            await adapter.runAsync(`DROP TABLE IF EXISTS code_dependencies`, []);
+            logger.info('[sa4e-303] Dropped code_dependencies table');
+        }
+        catch (err) {
+            logger.warn({ err }, '[sa4e-303] Could not drop code_dependencies (non-fatal)');
+        }
     }
-    catch (err) {
-        logger.warn({ err }, '[sa4e-303] Drop tables failed (non-fatal)');
+    else {
+        console.debug('[sa4e-303] code_dependencies table not found, skipping');
+    }
+    if (graphExists) {
+        try {
+            await adapter.runAsync(`DROP TABLE IF EXISTS code_call_graph`, []);
+            logger.info('[sa4e-303] Dropped code_call_graph table');
+        }
+        catch (err) {
+            logger.warn({ err }, '[sa4e-303] Could not drop code_call_graph (non-fatal)');
+        }
+    }
+    else {
+        console.debug('[sa4e-303] code_call_graph table not found, skipping');
     }
 }
 //# sourceMappingURL=ensure-sa4e-303.js.map

package/dist/database/schema-registry/ensure-sa4e-303.js.map

@@ -1 +1 @@
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package/dist/engine/graph/migrator.js

@@ -115,11 +115,14 @@ export async function runGraphMigrations(adapter) {
         await ensurePostgresSymbolFts(adapter);
         logger.error('[graph-migrator] PostgreSQL symbol FTS (tsvector) ready');
     }
-    // Update schema version
+    // Update schema version (ensure tracking table exists first — fresh DBs may
+    // reach here before engine/db SCHEMA_V1 has created it).
     if (engine === 'sqlite') {
+        await adapter.execAsync(`CREATE TABLE IF NOT EXISTS schema_version (version INTEGER PRIMARY KEY, applied_at TEXT NOT NULL DEFAULT (datetime('now')))`);
         await adapter.runAsync('INSERT OR REPLACE INTO schema_version (version) VALUES (?)', [3]);
     }
     else {
+        await adapter.execAsync(`CREATE TABLE IF NOT EXISTS schema_version (version INTEGER PRIMARY KEY, applied_at TIMESTAMPTZ NOT NULL DEFAULT current_timestamp)`);
         await adapter.runAsync('INSERT INTO schema_version (version) VALUES ($1) ON CONFLICT (version) DO NOTHING', [3]);
     }
     logger.error('[graph-migrator] Schema version set to 3');

package/dist/engine/graph/migrator.js.map

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