diff --git a/src/cli/commands/config.ts b/src/cli/commands/config.ts
index 75625294..7c721721 100644
--- a/src/cli/commands/config.ts
+++ b/src/cli/commands/config.ts
@@ -123,6 +123,15 @@ function buildInitTemplate(): string {
       apiKeyCommand: DEFAULTS.llm.apiKeyCommand,
     },
 
+    // Embedding backend for `codegraph embed`/`search`. Leave provider null
+    // for the local bundled model, or set it to "openai" to call a remote
+    // OpenAI-compatible endpoint configured via llm.baseUrl/apiKeyCommand.
+    embeddings: {
+      model: DEFAULTS.embeddings.model,
+      llmProvider: DEFAULTS.embeddings.llmProvider,
+      provider: DEFAULTS.embeddings.provider,
+    },
+
     query: {
       defaultDepth: DEFAULTS.query.defaultDepth,
       defaultLimit: DEFAULTS.query.defaultLimit,
diff --git a/tests/integration/cli.test.ts b/tests/integration/cli.test.ts
index e109cf04..f61b6915 100644
--- a/tests/integration/cli.test.ts
+++ b/tests/integration/cli.test.ts
@@ -330,3 +330,53 @@ describe('Registry CLI commands', () => {
     expect(out2).toContain('"api-2"');
   });
 });
+
+// ─── Config CLI ───────────────────────────────────────────────────────
+
+describe('Config CLI commands', () => {
+  let tmpHome: string;
+  let userConfigPath: string;
+
+  /**
+   * Run CLI with isolated HOME *and* an explicit CODEGRAPH_USER_CONFIG so
+   * --init doesn't touch the real global config. HOME/USERPROFILE alone
+   * aren't sufficient: getDefaultUserConfigPath() prefers XDG_CONFIG_HOME
+   * (ambiently set on GitHub Actions ubuntu-latest runners) and, on Windows,
+   * APPDATA (always set) ahead of the HOME-derived fallback — so on CI the
+   * scaffolded file can land outside tmpHome unless the path is pinned
+   * explicitly, same as tests/unit/config-user.test.ts does.
+   */
+  function runCfg(...args) {
+    return execFileSync('node', [...NODE_TS_FLAGS, CLI, ...args], {
+      cwd: tmpDir,
+      encoding: 'utf-8',
+      timeout: 30_000,
+      env: {
+        ...process.env,
+        HOME: tmpHome,
+        USERPROFILE: tmpHome,
+        CODEGRAPH_USER_CONFIG: userConfigPath,
+        XDG_CONFIG_HOME: undefined,
+        APPDATA: undefined,
+      },
+    });
+  }
+
+  beforeAll(() => {
+    tmpHome = fs.mkdtempSync(path.join(os.tmpdir(), 'codegraph-cfghome-'));
+    userConfigPath = path.join(tmpHome, '.config', 'codegraph', 'config.json');
+  });
+
+  afterAll(() => {
+    if (tmpHome) fs.rmSync(tmpHome, { recursive: true, force: true });
+  });
+
+  test('config --init scaffolds an embeddings section alongside llm', () => {
+    runCfg('config', '--init');
+    const scaffolded = JSON.parse(fs.readFileSync(userConfigPath, 'utf-8'));
+
+    expect(scaffolded.embeddings).toEqual({ model: null, llmProvider: null, provider: null });
+    expect(scaffolded.llm).toHaveProperty('baseUrl');
+    expect(scaffolded.llm).toHaveProperty('apiKeyCommand');
+  });
+});