fix MCP - remove yes flag

mcp-server/src/core/direct-functions/rules.js

@@ -39,9 +39,7 @@ export async function rulesDirect(args, log, context = {}) {
 			};
 		}
 		const rulesList = rules.join(',');
-		const yesFlag = yes !== false ? '--yes' : '';
-		const cmd =
-			`npx task-master rules ${action} ${rulesList} ${yesFlag}`.trim();
+		const cmd = `npx task-master rules ${action} ${rulesList}`.trim();
 		log.info(`[rulesDirect] Running: ${cmd} in ${projectRoot}`);
 		const output = execSync(cmd, { cwd: projectRoot, encoding: 'utf8' });
 		log.info(`[rulesDirect] Output: ${output}`);

scripts/init.js

@@ -436,6 +436,25 @@ async function initializeProject(options = {}) {
 			// Create structure using only necessary values
 			createProjectStructure(addAliasesPrompted, dryRun, selectedBrandRules);
 
+			// If in MCP mode, call MCP server for rules (without 'yes' param)
+			if (options.mcpMode && options.mcpServer) {
+				const mcpArgs = {
+					action: 'add',
+					rules: selectedBrandRules,
+					projectRoot: targetDir
+				};
+				try {
+					const mcpResult = await options.mcpServer.call('rules', mcpArgs);
+					if (mcpResult && mcpResult.success) {
+						log('success', `Brand rules added via MCP: ${selectedBrandRules.join(', ')}`);
+					} else {
+						log('error', `MCP rules add failed: ${mcpResult?.error?.message || 'Unknown error'}`);
+					}
+				} catch (err) {
+					log('error', `MCP server error: ${err.message}`);
+				}
+			}
+
 			for (const rule of selectedBrandRules) {
 				const profile = ruleProfiles[rule];
 				if (profile) {