feat: Enhanced project initialization with Git worktree detection (#743)

* Fix Cursor deeplink installation with copy-paste instructions (#723)

* detect git worktree

* add changeset

* add aliases and git flags

* add changeset

* rename and update test

* add store tasks in git functionality

* update changeset

* fix newline

* remove unused import

* update command wording

* update command option text

mcp-server/src/core/direct-functions/initialize-project.js

@@ -11,7 +11,7 @@ import { convertAllRulesToProfileRules } from '../../../../src/utils/rule-transf
 /**
  * Direct function wrapper for initializing a project.
  * Derives target directory from session, sets CWD, and calls core init logic.
- * @param {object} args - Arguments containing initialization options (addAliases, skipInstall, yes, projectRoot, rules)
+ * @param {object} args - Arguments containing initialization options (addAliases, initGit, storeTasksInGit, skipInstall, yes, projectRoot, rules)
  * @param {object} log - The FastMCP logger instance.
  * @param {object} context - The context object, must contain { session }.
  * @returns {Promise<{success: boolean, data?: any, error?: {code: string, message: string}}>} - Standard result object.
@@ -65,7 +65,9 @@ export async function initializeProjectDirect(args, log, context = {}) {
 		// Construct options ONLY from the relevant flags in args
 		// The core initializeProject operates in the current CWD, which we just set
 		const options = {
-			aliases: args.addAliases,
+			addAliases: args.addAliases,
+			initGit: args.initGit,
+			storeTasksInGit: args.storeTasksInGit,
 			skipInstall: args.skipInstall,
 			yes: true // Force yes mode
 		};

mcp-server/src/tools/initialize-project.js

@@ -23,8 +23,18 @@ export function registerInitializeProjectTool(server) {
 			addAliases: z
 				.boolean()
 				.optional()
-				.default(false)
+				.default(true)
 				.describe('Add shell aliases (tm, taskmaster) to shell config file.'),
+			initGit: z
+				.boolean()
+				.optional()
+				.default(true)
+				.describe('Initialize Git repository in project root.'),
+			storeTasksInGit: z
+				.boolean()
+				.optional()
+				.default(false)
+				.describe('Store tasks in Git (tasks.json and tasks/ directory).'),
 			yes: z
 				.boolean()
 				.optional()