diff --git a/src/cli.ts b/src/cli.ts
index 4a6d92c..17f0443 100644
--- a/src/cli.ts
+++ b/src/cli.ts
@@ -17,6 +17,7 @@ import { Command } from 'commander';
 import { resolve } from 'node:path';
 import {
   initGlobalDirs,
+  initProjectDirs,
   loadGlobalConfig,
   getEffectiveDebugConfig,
 } from './config/index.js';
@@ -53,6 +54,9 @@ program
     // Initialize global directories first
     await initGlobalDirs();
 
+    // Initialize project directories (.takt/)
+    initProjectDirs(cwd);
+
     // Initialize debug logger from config
     const debugConfig = getEffectiveDebugConfig(cwd);
     initDebugLogger(debugConfig, cwd);
diff --git a/src/config/initialization.ts b/src/config/initialization.ts
index 97a1ab6..1f6ca4a 100644
--- a/src/config/initialization.ts
+++ b/src/config/initialization.ts
@@ -14,11 +14,13 @@ import {
   getGlobalAgentsDir,
   getGlobalWorkflowsDir,
   getGlobalLogsDir,
+  getProjectConfigDir,
   ensureDir,
 } from './paths.js';
 import {
   copyGlobalResourcesToDir,
   copyLanguageResourcesToDir,
+  copyProjectResourcesToDir,
 } from '../resources/index.js';
 import { setLanguage } from './globalConfig.js';
 
@@ -74,3 +76,14 @@ export async function initGlobalDirs(): Promise<void> {
     copyGlobalResourcesToDir(getGlobalConfigDir());
   }
 }
+
+/**
+ * Initialize project-level .takt directory.
+ * Creates .takt/ and copies project resources (e.g., .gitignore).
+ * Only copies files that don't exist.
+ */
+export function initProjectDirs(projectDir: string): void {
+  const configDir = getProjectConfigDir(projectDir);
+  ensureDir(configDir);
+  copyProjectResourcesToDir(configDir);
+}