@idea1/cli 1.4.23 → 1.4.24

package/README.md

@@ -45,7 +45,7 @@ Agent Implementation → Dev Implementation → PR needs Approval → Complete
 
 ### start-project-item
 
-Start implementing an Idea1.ai project item in an isolated git worktree.
+Start implementing an Idea1.ai project item, either in an isolated git worktree or directly in the main repository.
 
 ```bash
 idea1 start-project-item <url> [branch-name] [options]
@@ -60,19 +60,29 @@ idea1 -s <url> [branch-name] [options]
 - `-p, --source-path <path>` - Path to source directory
 - `-b, --base-branch <branch>` - Base branch (default: `working/release`). Use `prompt` to interactively select.
 - `-pm, --permission-mode <mode>` - Claude permission mode (default: `plan`). Valid values: `acceptEdits`, `bypassPermissions`, `default`, `delegate`, `dontAsk`, `plan`
+- `-iso, --isolation <mode>` - Where to work on the branch (default: `worktree`). See [Isolation mode](#isolation-mode).
 - `--claude-entry-point <mode>` - How Claude is invoked after setup (default: `launch`). Valid values: `launch` (start a new Claude session), `inline` (output structured prompt for an already-running Claude session), `none` (do not invoke Claude)
 
 **What it does:**
 1. Sets the item's workflow status to "Agent implementation"
 2. Generates a branch name from the item description (if not provided)
 3. Creates a new branch from the base branch
-4. Creates a git worktree for isolated development
-5. Runs any setup hooks defined in `.idea1/settings.json`
+4. Sets up the working environment: a git worktree for isolated development, or the branch checked out in the main repository
+5. Runs any setup hooks defined in `.idea1/settings.json` (worktree mode only)
 6. Launches Claude Code with the implementation prompt
 
+### Isolation mode
+
+`start-project-item` and `join-project-item` both ask where you want to work on the branch. The prompt is always shown, with `worktree` preselected:
+
+- `worktree` (default) - creates/uses a git worktree in a sibling directory (`<repo>-<branch>`), leaving the main repository on its own branch. Runs the `setup-worktree` hook.
+- `main-repo` - checks the branch out in the main repository, in place. Requires a clean working directory and fails if the branch is already checked out in a worktree. The `setup-worktree` hook is skipped, since the main repository is already set up.
+
+Supply `-iso worktree` or `-iso main-repo` on the command line to skip the prompt. The preselected default comes from the `defaultIsolationMode` user config value.
+
 ### join-project-item
 
-Join an **in-progress** project item by setting up a git worktree on its existing branch — for picking up work started elsewhere (e.g. on another machine or by another developer). Unlike `start-project-item`, it does not create a branch or launch a Claude implementation session.
+Join an **in-progress** project item by setting up a working environment on its existing branch — for picking up work started elsewhere (e.g. on another machine or by another developer). Unlike `start-project-item`, it does not create a branch or launch a Claude implementation session.
 
 ```bash
 idea1 join-project-item --project-item-url <url>
@@ -84,6 +94,7 @@ idea1 -j --branch-name <branch>
 - `--project-item-url <url>` - The Idea1.ai project item URL; its branch is discovered automatically.
 - `-n, --branch-name <branch>` - The branch to join; its associated project item is discovered automatically.
 - `-p, --source-path <path>` - Path to source directory.
+- `-iso, --isolation <mode>` - Where to work on the branch (default: `worktree`). See [Isolation mode](#isolation-mode).
 - `-pm, --permission-mode <mode>` - Claude permission mode (default: `plan`).
 - `-e, --effort <level>` - Claude effort level (default: `high`).
 
@@ -91,10 +102,10 @@ In interactive mode, if neither option is supplied you are prompted to choose wh
 
 **What it does:**
 1. Resolves the branch from the URL (or the URL from the branch) using the committed branch metadata.
-2. Creates a git worktree on the existing branch (creating a local tracking branch if it only exists on the remote).
+2. Sets up the working environment on the existing branch — a git worktree, or the branch checked out in the main repository (creating a local tracking branch if it only exists on the remote).
 3. Re-establishes local workflow state (project item URL, base branch, workflow state, dev workflow type, stack/integration branch) from the committed `.idea1/<branch>.json` metadata.
 4. If the branch was never properly set up, seeds the same defaults as `start-project-item` (`Agent implementation` / `independent`) and pushes the recovered metadata to the remote.
-5. Runs any setup hooks defined in `.idea1/settings.json`. It does **not** launch a Claude implementation session.
+5. Runs any setup hooks defined in `.idea1/settings.json` (worktree mode only). It does **not** launch a Claude implementation session.
 
 If a project item URL is supplied but no branch exists for it yet (the item was never started), `join-project-item` falls back to the `start-project-item` setup flow, without launching the implementation session.
 

package/dist/commands/join-project-item.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"join-project-item.d.ts","sourceRoot":"","sources":["../../src/commands/join-project-item.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,OAAO,EAA2D,MAAM,mBAAmB,CAAC;AAU1G,eAAO,MAAM,sBAAsB,EAAE,OA8IpC,CAAC"}

package/dist/commands/join-project-item.js

@@ -1,5 +1,6 @@
 import { basename } from 'path';
 import { logger } from '../lib/logger.js';
+import { isolationModeOption, resolveIsolationMode } from '../lib/isolation.js';
 import * as git from '../services/git.js';
 import * as worktree from '../services/worktree.js';
 import * as claude from '../services/claude.js';
@@ -9,7 +10,7 @@ import { startProjectItemCommand, VALID_PERMISSION_MODES, VALID_EFFORT_LEVELS }
 export const joinProjectItemCommand = {
     name: 'join-project-item',
     aliases: ['j', 'join'],
-    description: 'Join an in-progress project item by setting up a worktree on its existing branch',
+    description: 'Join an in-progress project item by setting up a working environment on its existing branch',
     options: [
         {
             longName: 'project-item-url',
@@ -44,6 +45,7 @@ export const joinProjectItemCommand = {
             defaultValue: '',
             promptWhenDefaultExists: false
         },
+        isolationModeOption,
         {
             longName: 'permission-mode',
             shortName: 'pm',
@@ -74,6 +76,7 @@ export const joinProjectItemCommand = {
         const url = resolved['project-item-url'] || undefined;
         const branchArg = resolved['branch-name'] || undefined;
         const prUrl = resolved['pull-request-url'] || undefined;
+        const isolationMode = resolveIsolationMode(resolved);
         if (sourcePath) {
             process.chdir(sourcePath);
         }
@@ -94,7 +97,8 @@ export const joinProjectItemCommand = {
                     'workflow-type': 'independent',
                     'base-branch': baseBranch,
                     'claude-entry-point': 'none',
-                    'source-path': ''
+                    'source-path': '',
+                    isolation: isolationMode
                 });
                 return;
             }
@@ -120,13 +124,16 @@ export const joinProjectItemCommand = {
             }
         }
         logger.section('Join Project Item');
-        // Create a worktree on the existing branch
-        const worktreePath = await git.createWorktreeForBranch(branch, basename(branch));
+        // Set up the working environment on the existing branch: an isolated
+        // worktree, or the branch checked out in the main repository.
+        const workingPath = isolationMode === 'main-repo'
+            ? await git.checkoutBranchInMainRepo(branch)
+            : await git.createWorktreeForBranch(branch, basename(branch));
         // Recover durable per-branch metadata committed on the branch, then re-seed
         // local git config and fill any missing state with start-project-item defaults.
-        await reestablishBranchState(worktreePath, branch, url);
+        await reestablishBranchState(workingPath, branch, url);
         logger.success(`Joined ${branch}`);
-        await worktree.finalizeWorktreeSetup(worktreePath, {
+        await worktree.finalizeBranchSetup(workingPath, isolationMode, {
             projectItemUrl: url,
             permissionMode,
             effort,
@@ -140,7 +147,7 @@ export const joinProjectItemCommand = {
  * lookups, default any missing fields to where start-project-item leaves a
  * branch, and persist newly-seeded state back to the remote so future joins see it.
  */
-async function reestablishBranchState(worktreePath, branch, urlOverride) {
+async function reestablishBranchState(workingPath, branch, urlOverride) {
     const remote = await git.readBranchMetadataFromRef(branch);
     const projectItemUrl = urlOverride ?? remote?.projectItemUrl;
     const baseBranch = remote?.baseBranch ?? await worktree.resolveBaseBranch();
@@ -179,9 +186,9 @@ async function reestablishBranchState(worktreePath, branch, urlOverride) {
         metadata.stackBranch = stackBranch;
     if (integrationBranch)
         metadata.integrationBranch = integrationBranch;
-    // Operate inside the worktree where the branch (and its `.idea1/` dir) is checked out.
-    process.chdir(worktreePath);
-    await git.writeBranchMetadata(metadata, worktreePath);
+    // Operate inside the directory where the branch (and its `.idea1/` dir) is checked out.
+    process.chdir(workingPath);
+    await git.writeBranchMetadata(metadata, workingPath);
     const committed = await git.commitBranchMetadataIfChanged(branch);
     if (committed) {
         await git.pushToRemote(branch);

package/dist/commands/join-project-item.js.map

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package/dist/commands/start-project-item.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"start-project-item.d.ts","sourceRoot":"","sources":["../../src/commands/start-project-item.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,OAAO,EAAE,oBAAoB,EAAwB,iBAAiB,EAAmB,MAAM,mBAAmB,CAAC;AASjI,eAAO,MAAM,sBAAsB,EAAE,oBAAoB,EAAmF,CAAC;AAE7I,eAAO,MAAM,mBAAmB,EAAE,iBAAiB,EAA8C,CAAC;AAQlG,eAAO,MAAM,gBAAgB;;;GAG5B,CAAC;AAkBF,MAAM,WAAW,0BAA0B;IACzC,eAAe,EAAE,MAAM,CAAC;IACxB,qBAAqB,EAAE,MAAM,CAAC;IAC9B,KAAK,EAAE,OAAO,CAAC;CAChB;AAED;;;;;GAKG;AACH,wBAAsB,oBAAoB,IAAI,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CA6BnE;AAED;;;;GAIG;AACH,wBAAsB,0BAA0B,IAAI,OAAO,CAAC,0BAA0B,CAAC,CAoBtF;AAED,eAAO,MAAM,uBAAuB,EAAE,OAmLrC,CAAC"}
+{"version":3,"file":"start-project-item.d.ts","sourceRoot":"","sources":["../../src/commands/start-project-item.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,OAAO,EAAE,oBAAoB,EAAwB,iBAAiB,EAAkC,MAAM,mBAAmB,CAAC;AAUhJ,eAAO,MAAM,sBAAsB,EAAE,oBAAoB,EAAmF,CAAC;AAE7I,eAAO,MAAM,mBAAmB,EAAE,iBAAiB,EAA8C,CAAC;AAQlG,eAAO,MAAM,gBAAgB;;;GAG5B,CAAC;AAkBF,MAAM,WAAW,0BAA0B;IACzC,eAAe,EAAE,MAAM,CAAC;IACxB,qBAAqB,EAAE,MAAM,CAAC;IAC9B,KAAK,EAAE,OAAO,CAAC;CAChB;AAED;;;;;GAKG;AACH,wBAAsB,oBAAoB,IAAI,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CA6BnE;AAED;;;;GAIG;AACH,wBAAsB,0BAA0B,IAAI,OAAO,CAAC,0BAA0B,CAAC,CAoBtF;AAED,eAAO,MAAM,uBAAuB,EAAE,OAqLrC,CAAC"}

package/dist/commands/start-project-item.js

@@ -1,5 +1,6 @@
 import { logger } from '../lib/logger.js';
 import { promptInput, promptSelect } from '../lib/prompt.js';
+import { isolationModeOption, resolveIsolationMode } from '../lib/isolation.js';
 import * as git from '../services/git.js';
 import * as claude from '../services/claude.js';
 import * as worktree from '../services/worktree.js';
@@ -89,7 +90,7 @@ export async function promptForIntegrationBranch() {
 export const startProjectItemCommand = {
     name: 'start-project-item',
     aliases: ['s', 'start'],
-    description: 'Start implementing a project item in an isolated environment',
+    description: 'Start implementing a project item on a new branch, in a worktree or the main repo',
     options: [
         {
             // Declared first so it's the very first thing prompted, before every
@@ -162,6 +163,7 @@ export const startProjectItemCommand = {
             defaultValue: undefined,
             choices: WORKFLOW_CHOICES
         },
+        isolationModeOption,
         {
             longName: 'effort',
             shortName: 'e',
@@ -198,6 +200,7 @@ export const startProjectItemCommand = {
         const permissionMode = resolved['permission-mode'];
         const effort = (resolved['effort'] ?? 'high');
         const workflowType = (resolved['workflow-type'] ?? 'independent');
+        const isolationMode = resolveIsolationMode(resolved);
         let claudeEntryPointMode = (resolved['claude-entry-point'] ?? 'launch');
         let shortBranchName = resolved['branch-name'] || undefined;
         // Navigate to source path if provided
@@ -242,20 +245,20 @@ export const startProjectItemCommand = {
             await git.ensureStackBranchReady(stackBranch);
         }
         if (workflowType === 'independent') {
-            await startIndependentFeature(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch);
+            await startIndependentFeature(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, isolationMode);
         }
         else {
             if (!integrationSelection) {
                 throw new Error('Integration selection was not collected');
             }
-            await startWorkForIntegration(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, integrationSelection);
+            await startWorkForIntegration(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, integrationSelection, isolationMode);
         }
     }
 };
 /**
  * Start an Independent Feature workflow
  */
-async function startIndependentFeature(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch) {
+async function startIndependentFeature(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, isolationMode) {
     logger.section('Independent Feature Workflow');
     // Resolve branch prefix
     const branchPrefix = await worktree.resolveBranchPrefix();
@@ -275,7 +278,7 @@ async function startIndependentFeature(projectItemUrl, shortBranchName, baseBran
     if (stackBranch) {
         await git.storeStackBranch(stackBranch, fullBranchName);
     }
-    await worktree.setupWorktreeIsolation(fullBranchName, shortBranchName, prTargetBranch, {
+    await worktree.setupBranchEnvironment(isolationMode, fullBranchName, shortBranchName, prTargetBranch, {
         projectItemUrl,
         permissionMode,
         effort,
@@ -285,7 +288,7 @@ async function startIndependentFeature(projectItemUrl, shortBranchName, baseBran
 /**
  * Start a Work for Integration workflow
  */
-async function startWorkForIntegration(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, integrationSelection) {
+async function startWorkForIntegration(projectItemUrl, shortBranchName, baseBranch, permissionMode, effort, claudeEntryPointMode, stackBranch, integrationSelection, isolationMode) {
     logger.section('Work for Integration Workflow');
     const { integrationName, integrationBranchName, isNew } = integrationSelection;
     if (isNew) {
@@ -312,7 +315,7 @@ async function startWorkForIntegration(projectItemUrl, shortBranchName, baseBran
     if (stackBranch) {
         await git.storeStackBranch(stackBranch, fullBranchName);
     }
-    await worktree.setupWorktreeIsolation(fullBranchName, shortBranchName, prTargetBranch, {
+    await worktree.setupBranchEnvironment(isolationMode, fullBranchName, shortBranchName, prTargetBranch, {
         projectItemUrl,
         permissionMode,
         effort,

package/dist/commands/start-project-item.js.map

@@ -1 +1 @@
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package/dist/lib/isolation.d.ts

@@ -0,0 +1,18 @@
+import type { CommandOption, IsolationMode } from '../types/index.js';
+export declare const VALID_ISOLATION_MODES: IsolationMode[];
+export declare const ISOLATION_MODE_CHOICES: {
+    label: string;
+    value: string;
+}[];
+/**
+ * Shared option for every command that sets a branch up for work, so they all
+ * ask the same question the same way. The default is 'worktree' (overridable in
+ * user config), but the user is always prompted (promptWhenDefaultExists) so the
+ * choice is explicit.
+ */
+export declare const isolationModeOption: CommandOption;
+/**
+ * Read the resolved isolation mode, defaulting to 'worktree' when absent.
+ */
+export declare function resolveIsolationMode(resolved: Record<string, string>): IsolationMode;
+//# sourceMappingURL=isolation.d.ts.map

package/dist/lib/isolation.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"isolation.d.ts","sourceRoot":"","sources":["../../src/lib/isolation.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,aAAa,EAAE,aAAa,EAAE,MAAM,mBAAmB,CAAC;AAGtE,eAAO,MAAM,qBAAqB,EAAE,aAAa,EAA8B,CAAC;AAEhF,eAAO,MAAM,sBAAsB;;;GAGlC,CAAC;AAEF;;;;;GAKG;AACH,eAAO,MAAM,mBAAmB,EAAE,aAWjC,CAAC;AAEF;;GAEG;AACH,wBAAgB,oBAAoB,CAAC,QAAQ,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,GAAG,aAAa,CAEpF"}

package/dist/lib/isolation.js

@@ -0,0 +1,30 @@
+import { configService } from '../services/config.js';
+export const VALID_ISOLATION_MODES = ['worktree', 'main-repo'];
+export const ISOLATION_MODE_CHOICES = [
+    { label: 'Worktree - isolated worktree in a sibling directory', value: 'worktree' },
+    { label: 'Main repo - check the branch out in the main repository', value: 'main-repo' }
+];
+/**
+ * Shared option for every command that sets a branch up for work, so they all
+ * ask the same question the same way. The default is 'worktree' (overridable in
+ * user config), but the user is always prompted (promptWhenDefaultExists) so the
+ * choice is explicit.
+ */
+export const isolationModeOption = {
+    longName: 'isolation',
+    shortName: 'iso',
+    description: 'Where to work on the branch',
+    defaultValue: () => configService.getDefaultIsolationMode(),
+    promptWhenDefaultExists: true,
+    choices: ISOLATION_MODE_CHOICES,
+    validate: (value) => VALID_ISOLATION_MODES.includes(value)
+        ? undefined
+        : `Must be one of: ${VALID_ISOLATION_MODES.join(', ')}`
+};
+/**
+ * Read the resolved isolation mode, defaulting to 'worktree' when absent.
+ */
+export function resolveIsolationMode(resolved) {
+    return (resolved['isolation'] ?? 'worktree');
+}
+//# sourceMappingURL=isolation.js.map

package/dist/lib/isolation.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"isolation.js","sourceRoot":"","sources":["../../src/lib/isolation.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,aAAa,EAAE,MAAM,uBAAuB,CAAC;AAEtD,MAAM,CAAC,MAAM,qBAAqB,GAAoB,CAAC,UAAU,EAAE,WAAW,CAAC,CAAC;AAEhF,MAAM,CAAC,MAAM,sBAAsB,GAAG;IACpC,EAAE,KAAK,EAAE,qDAAqD,EAAE,KAAK,EAAE,UAAU,EAAE;IACnF,EAAE,KAAK,EAAE,yDAAyD,EAAE,KAAK,EAAE,WAAW,EAAE;CACzF,CAAC;AAEF;;;;;GAKG;AACH,MAAM,CAAC,MAAM,mBAAmB,GAAkB;IAChD,QAAQ,EAAE,WAAW;IACrB,SAAS,EAAE,KAAK;IAChB,WAAW,EAAE,6BAA6B;IAC1C,YAAY,EAAE,GAAG,EAAE,CAAC,aAAa,CAAC,uBAAuB,EAAE;IAC3D,uBAAuB,EAAE,IAAI;IAC7B,OAAO,EAAE,sBAAsB;IAC/B,QAAQ,EAAE,CAAC,KAAa,EAAE,EAAE,CAC1B,qBAAqB,CAAC,QAAQ,CAAC,KAAsB,CAAC;QACpD,CAAC,CAAC,SAAS;QACX,CAAC,CAAC,mBAAmB,qBAAqB,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE;CAC5D,CAAC;AAEF;;GAEG;AACH,MAAM,UAAU,oBAAoB,CAAC,QAAgC;IACnE,OAAO,CAAC,QAAQ,CAAC,WAAW,CAAC,IAAI,UAAU,CAAkB,CAAC;AAChE,CAAC"}

package/dist/services/config.d.ts

@@ -1,3 +1,4 @@
+import type { IsolationMode } from '../types/index.js';
 export declare const configService: {
     /**
      * Get the default base branch
@@ -16,13 +17,14 @@ export declare const configService: {
      */
     setDefaultBranchPrefix(prefix: string): void;
     /**
-     * Get the default isolation mode
+     * Get the default isolation mode. Any value stored by an older CLI version
+     * that is no longer a valid mode falls back to 'worktree'.
      */
-    getDefaultIsolationMode(): "worktree" | "container";
+    getDefaultIsolationMode(): IsolationMode;
     /**
      * Set the default isolation mode
      */
-    setDefaultIsolationMode(mode: "worktree" | "container"): void;
+    setDefaultIsolationMode(mode: IsolationMode): void;
     /**
      * Get the default integration branch prefix
      */

package/dist/services/config.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../../src/services/config.ts"],"names":[],"mappings":"AAwBA,eAAO,MAAM,aAAa;IACxB;;OAEG;4BACqB,MAAM;IAI9B;;OAEG;iCAC0B,MAAM,GAAG,IAAI;IAI1C;;OAEG;8BACuB,MAAM;IAIhC;;OAEG;mCAC4B,MAAM,GAAG,IAAI;IAI5C;;OAEG;+BACwB,UAAU,GAAG,WAAW;IAInD;;OAEG;kCAC2B,UAAU,GAAG,WAAW,GAAG,IAAI;IAI7D;;OAEG;yCACkC,MAAM;IAI3C;;OAEG;8CACuC,MAAM,GAAG,IAAI;IAIvD;;OAEG;iCAC0B,MAAM,GAAG,SAAS;IAI/C;;OAEG;mCAC4B,MAAM,GAAG,IAAI;IAI5C;;OAEG;qBACc,MAAM;IAIvB;;OAEG;aACM,IAAI;CAGd,CAAC"}
+{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../../src/services/config.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,mBAAmB,CAAC;AAwBvD,eAAO,MAAM,aAAa;IACxB;;OAEG;4BACqB,MAAM;IAI9B;;OAEG;iCAC0B,MAAM,GAAG,IAAI;IAI1C;;OAEG;8BACuB,MAAM;IAIhC;;OAEG;mCAC4B,MAAM,GAAG,IAAI;IAI5C;;;OAGG;+BACwB,aAAa;IAKxC;;OAEG;kCAC2B,aAAa,GAAG,IAAI;IAIlD;;OAEG;yCACkC,MAAM;IAI3C;;OAEG;8CACuC,MAAM,GAAG,IAAI;IAIvD;;OAEG;iCAC0B,MAAM,GAAG,SAAS;IAI/C;;OAEG;mCAC4B,MAAM,GAAG,IAAI;IAI5C;;OAEG;qBACc,MAAM;IAIvB;;OAEG;aACM,IAAI;CAGd,CAAC"}

package/dist/services/config.js

@@ -38,10 +38,12 @@ export const configService = {
         config.set('defaultBranchPrefix', prefix);
     },
     /**
-     * Get the default isolation mode
+     * Get the default isolation mode. Any value stored by an older CLI version
+     * that is no longer a valid mode falls back to 'worktree'.
      */
     getDefaultIsolationMode() {
-        return config.get('defaultIsolationMode');
+        const mode = config.get('defaultIsolationMode');
+        return mode === 'main-repo' ? 'main-repo' : 'worktree';
     },
     /**
      * Set the default isolation mode

package/dist/services/config.js.map

@@ -1 +1 @@
-{"version":3,"file":"config.js","sourceRoot":"","sources":["../../src/services/config.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,MAAM,CAAC;AAUxB;;;GAGG;AACH,MAAM,MAAM,GAAG,IAAI,IAAI,CAAe;IACpC,WAAW,EAAE,WAAW;IACxB,QAAQ,EAAE;QACR,iBAAiB,EAAE,iBAAiB;QACpC,mBAAmB,EAAE,eAAe;QACpC,oBAAoB,EAAE,UAAU;QAChC,8BAA8B,EAAE,qBAAqB;KACtD;CACF,CAAC,CAAC;AAEH,MAAM,CAAC,MAAM,aAAa,GAAG;IAC3B;;OAEG;IACH,oBAAoB;QAClB,OAAO,MAAM,CAAC,GAAG,CAAC,mBAAmB,CAAC,CAAC;IACzC,CAAC;IAED;;OAEG;IACH,oBAAoB,CAAC,MAAc;QACjC,MAAM,CAAC,GAAG,CAAC,mBAAmB,EAAE,MAAM,CAAC,CAAC;IAC1C,CAAC;IAED;;OAEG;IACH,sBAAsB;QACpB,OAAO,MAAM,CAAC,GAAG,CAAC,qBAAqB,CAAC,CAAC;IAC3C,CAAC;IAED;;OAEG;IACH,sBAAsB,CAAC,MAAc;QACnC,MAAM,CAAC,GAAG,CAAC,qBAAqB,EAAE,MAAM,CAAC,CAAC;IAC5C,CAAC;IAED;;OAEG;IACH,uBAAuB;QACrB,OAAO,MAAM,CAAC,GAAG,CAAC,sBAAsB,CAAC,CAAC;IAC5C,CAAC;IAED;;OAEG;IACH,uBAAuB,CAAC,IAA8B;QACpD,MAAM,CAAC,GAAG,CAAC,sBAAsB,EAAE,IAAI,CAAC,CAAC;IAC3C,CAAC;IAED;;OAEG;IACH,iCAAiC;QAC/B,OAAO,MAAM,CAAC,GAAG,CAAC,gCAAgC,CAAC,CAAC;IACtD,CAAC;IAED;;OAEG;IACH,iCAAiC,CAAC,MAAc;QAC9C,MAAM,CAAC,GAAG,CAAC,gCAAgC,EAAE,MAAM,CAAC,CAAC;IACvD,CAAC;IAED;;OAEG;IACH,yBAAyB;QACvB,OAAO,MAAM,CAAC,GAAG,CAAC,wBAAwB,CAAC,CAAC;IAC9C,CAAC;IAED;;OAEG;IACH,yBAAyB,CAAC,GAAW;QACnC,MAAM,CAAC,GAAG,CAAC,wBAAwB,EAAE,GAAG,CAAC,CAAC;IAC5C,CAAC;IAED;;OAEG;IACH,aAAa;QACX,OAAO,MAAM,CAAC,IAAI,CAAC;IACrB,CAAC;IAED;;OAEG;IACH,KAAK;QACH,MAAM,CAAC,KAAK,EAAE,CAAC;IACjB,CAAC;CACF,CAAC"}
+{"version":3,"file":"config.js","sourceRoot":"","sources":["../../src/services/config.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,MAAM,CAAC;AAWxB;;;GAGG;AACH,MAAM,MAAM,GAAG,IAAI,IAAI,CAAe;IACpC,WAAW,EAAE,WAAW;IACxB,QAAQ,EAAE;QACR,iBAAiB,EAAE,iBAAiB;QACpC,mBAAmB,EAAE,eAAe;QACpC,oBAAoB,EAAE,UAAU;QAChC,8BAA8B,EAAE,qBAAqB;KACtD;CACF,CAAC,CAAC;AAEH,MAAM,CAAC,MAAM,aAAa,GAAG;IAC3B;;OAEG;IACH,oBAAoB;QAClB,OAAO,MAAM,CAAC,GAAG,CAAC,mBAAmB,CAAC,CAAC;IACzC,CAAC;IAED;;OAEG;IACH,oBAAoB,CAAC,MAAc;QACjC,MAAM,CAAC,GAAG,CAAC,mBAAmB,EAAE,MAAM,CAAC,CAAC;IAC1C,CAAC;IAED;;OAEG;IACH,sBAAsB;QACpB,OAAO,MAAM,CAAC,GAAG,CAAC,qBAAqB,CAAC,CAAC;IAC3C,CAAC;IAED;;OAEG;IACH,sBAAsB,CAAC,MAAc;QACnC,MAAM,CAAC,GAAG,CAAC,qBAAqB,EAAE,MAAM,CAAC,CAAC;IAC5C,CAAC;IAED;;;OAGG;IACH,uBAAuB;QACrB,MAAM,IAAI,GAAG,MAAM,CAAC,GAAG,CAAC,sBAAsB,CAAC,CAAC;QAChD,OAAO,IAAI,KAAK,WAAW,CAAC,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC,UAAU,CAAC;IACzD,CAAC;IAED;;OAEG;IACH,uBAAuB,CAAC,IAAmB;QACzC,MAAM,CAAC,GAAG,CAAC,sBAAsB,EAAE,IAAI,CAAC,CAAC;IAC3C,CAAC;IAED;;OAEG;IACH,iCAAiC;QAC/B,OAAO,MAAM,CAAC,GAAG,CAAC,gCAAgC,CAAC,CAAC;IACtD,CAAC;IAED;;OAEG;IACH,iCAAiC,CAAC,MAAc;QAC9C,MAAM,CAAC,GAAG,CAAC,gCAAgC,EAAE,MAAM,CAAC,CAAC;IACvD,CAAC;IAED;;OAEG;IACH,yBAAyB;QACvB,OAAO,MAAM,CAAC,GAAG,CAAC,wBAAwB,CAAC,CAAC;IAC9C,CAAC;IAED;;OAEG;IACH,yBAAyB,CAAC,GAAW;QACnC,MAAM,CAAC,GAAG,CAAC,wBAAwB,EAAE,GAAG,CAAC,CAAC;IAC5C,CAAC;IAED;;OAEG;IACH,aAAa;QACX,OAAO,MAAM,CAAC,IAAI,CAAC;IACrB,CAAC;IAED;;OAEG;IACH,KAAK;QACH,MAAM,CAAC,KAAK,EAAE,CAAC;IACjB,CAAC;CACF,CAAC"}

package/dist/services/git.d.ts

@@ -85,6 +85,13 @@ export declare function createWorktree(fullBranchName: string, shortBranchName:
  *   first so `git worktree add` can succeed.
  */
 export declare function createWorktreeForBranch(branchName: string, shortBranchName: string): Promise<string>;
+/**
+ * Check an existing branch out in the main working tree, creating a local
+ * tracking branch when it exists only on the remote. Returns the main repo root.
+ * This is the main-repo counterpart to createWorktreeForBranch: work happens in
+ * the primary clone instead of a dedicated worktree.
+ */
+export declare function checkoutBranchInMainRepo(branchName: string): Promise<string>;
 /**
  * Remove a git worktree
  */

package/dist/services/git.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"git.d.ts","sourceRoot":"","sources":["../../src/services/git.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AAmCxD;;;GAGG;AACH,wBAAsB,kBAAkB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,cAAc,GAAG,IAAI,CAAC,CAW5F;AAED;;;;GAIG;AACH,wBAAsB,yBAAyB,CAAC,UAAU,EAAE,MAAM,EAAE,MAAM,SAAW,GAAG,OAAO,CAAC,cAAc,GAAG,IAAI,CAAC,CAUrH;AAED;;;GAGG;AACH,wBAAsB,mBAAmB,CAAC,QAAQ,EAAE,cAAc,EAAE,YAAY,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC,CAS3G;AAoBD;;GAEG;AACH,wBAAsB,WAAW,IAAI,OAAO,CAAC,MAAM,CAAC,CAEnD;AAED;;GAEG;AACH,wBAAsB,WAAW,IAAI,OAAO,CAAC,MAAM,CAAC,CAGnD;AAED;;GAEG;AACH,wBAAsB,eAAe,IAAI,OAAO,CAAC,MAAM,CAAC,CAMvD;AAED;;GAEG;AACH,wBAAsB,gBAAgB,IAAI,OAAO,CAAC,MAAM,CAAC,CAGxD;AAED;;GAEG;AACH,wBAAsB,gBAAgB,IAAI,OAAO,CAAC,OAAO,CAAC,CAQzD;AAED;;GAEG;AACH,wBAAsB,2BAA2B,IAAI,OAAO,CAAC,IAAI,CAAC,CAejE;AAED;;GAEG;AACH,wBAAsB,qBAAqB,IAAI,OAAO,CAAC,OAAO,CAAC,CAM9D;AAED;;GAEG;AACH,wBAAsB,WAAW,IAAI,OAAO,CAAC,IAAI,CAAC,CAGjD;AAED;;;GAGG;AACH,wBAAsB,wBAAwB,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAsBzF;AAED;;;;GAIG;AACH,wBAAsB,oBAAoB,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAS5E;AAED;;GAEG;AACH,wBAAsB,qBAAqB,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAM7E;AAED;;GAEG;AACH,wBAAsB,mBAAmB,CAAC,cAAc,EAAE,MAAM,EAAE,cAAc,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAQvG;AAED;;;;GAIG;AACH,wBAAsB,sBAAsB,CAC1C,cAAc,EAAE,MAAM,EACtB,cAAc,EAAE,MAAM,EACtB,cAAc,CAAC,EAAE,MAAM,GACtB,OAAO,CAAC,IAAI,CAAC,CAgCf;AAED;;GAEG;AACH,wBAAsB,cAAc,CAAC,cAAc,EAAE,MAAM,EAAE,eAAe,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CAUrG;AAED;;;;;;;GAOG;AACH,wBAAsB,uBAAuB,CAAC,UAAU,EAAE,MAAM,EAAE,eAAe,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CA8B1G;AAED;;;;;GAKG;AACH,wBAAsB,wBAAwB,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CA8BlF;AAED;;GAEG;AACH,wBAAsB,cAAc,CAAC,YAAY,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CA4BxE;AAED;;GAEG;AACH,wBAAsB,qBAAqB,CAAC,YAAY,EAAE,MAAM,EAAE,cAAc,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAGvG;AAED;;GAEG;AACH,wBAAsB,mBAAmB,CAAC,cAAc,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAOpG;AAED;;;;GAIG;AACH,wBAAsB,oBAAoB,CAAC,YAAY,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,EAAE,cAAc,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CA+B3H;AAED;;;GAGG;AACH,wBAAsB,2BAA2B,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAiBnF;AAED;;;GAGG;AACH,wBAAsB,6BAA6B,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC,CAuBxF;AAED;;;;GAIG;AACH,wBAAsB,2BAA2B,CAAC,cAAc,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAkChG;AAED;;;;;GAKG;AACH,wBAAsB,+BAA+B,CAAC,cAAc,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAkBpG;AAyBD;;;GAGG;AACH,wBAAsB,iBAAiB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAEnF;AAED;;GAEG;AACH,wBAAsB,eAAe,CAAC,UAAU,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAO5F;AAED;;GAEG;AACH,wBAAsB,aAAa,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAK/E;AAED;;GAEG;AACH,wBAAsB,YAAY,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC,CAUvE;AAED;;GAEG;AACH,wBAAsB,gBAAgB,CAAC,OAAO,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAcrE;AAED;;GAEG;AACH,wBAAsB,YAAY,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAIpE;AAED;;GAEG;AACH,wBAAsB,uBAAuB,IAAI,OAAO,CAAC,IAAI,CAAC,CA8B7D;AAgCD;;GAEG;AACH,wBAAsB,kBAAkB,CAAC,KAAK,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAO1F;AAED;;GAEG;AACH,wBAAsB,gBAAgB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAElF;AAED;;GAEG;AACH,wBAAsB,oBAAoB,CAAC,YAAY,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAOnG;AAED;;GAEG;AACH,wBAAsB,kBAAkB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAEpF;AAED;;GAEG;AACH,wBAAsB,gBAAgB,CAAC,WAAW,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAO9F;AAED;;GAEG;AACH,wBAAsB,cAAc,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAEhF;AAED;;GAEG;AACH,wBAAsB,sBAAsB,CAAC,iBAAiB,EAAE,MAAM,EAAE,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAO1G;AAED;;GAEG;AACH,wBAAsB,oBAAoB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAEtF;AAED;;GAEG;AACH,wBAAsB,kBAAkB,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAgC1E;AAED;;GAEG;AACH,wBAAsB,WAAW,CAAC,YAAY,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAIrE;AAED;;;;;GAKG;AACH,wBAAsB,mBAAmB,CAAC,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC;IAAE,YAAY,EAAE,OAAO,CAAA;CAAE,CAAC,CAW5G;AAED;;GAEG;AACH,wBAAsB,UAAU,IAAI,OAAO,CAAC,IAAI,CAAC,CAEhD;AAED;;GAEG;AACH,wBAAsB,kBAAkB,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,CAS1E;AAED;;GAEG;AACH,wBAAsB,kBAAkB,CAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC,CAI9E;AAED;;GAEG;AACH,wBAAsB,oBAAoB,IAAI,OAAO,CAAC,IAAI,CAAC,CAO1D;AAED;;GAEG;AACH,wBAAsB,YAAY,CAAC,UAAU,EAAE,MAAM,EAAE,YAAY,GAAE,OAAc,GAAG,OAAO,CAAC,IAAI,CAAC,CAUlG;AAED;;GAEG;AACH,wBAAsB,cAAc,CAAC,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAGtE;AAED;;;;;GAKG;AACH,wBAAsB,sBAAsB,CAAC,WAAW,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAsC/E"}

package/dist/services/git.js

@@ -317,6 +317,37 @@ export async function createWorktreeForBranch(branchName, shortBranchName) {
     logger.success(`Worktree created successfully at ${worktreePath}`);
     return worktreePath;
 }
+/**
+ * Check an existing branch out in the main working tree, creating a local
+ * tracking branch when it exists only on the remote. Returns the main repo root.
+ * This is the main-repo counterpart to createWorktreeForBranch: work happens in
+ * the primary clone instead of a dedicated worktree.
+ */
+export async function checkoutBranchInMainRepo(branchName) {
+    const mainRepoRoot = (await getMainRepoRoot()).trim();
+    process.chdir(mainRepoRoot);
+    const existingWorktree = await getWorktreePathForBranch(branchName);
+    if (existingWorktree) {
+        throw new Error(`Branch '${branchName}' is already checked out in a worktree at ${existingWorktree}. ` +
+            `Work there, or remove that worktree before working on the branch in the main repository.`);
+    }
+    const currentBranch = await getCurrentBranch();
+    if (currentBranch !== branchName) {
+        await ensureCleanWorkingDirectory();
+        logger.step(`Checking out ${branchName} in ${mainRepoRoot}...`);
+        const localExists = await exec('git', ['rev-parse', '--verify', branchName]);
+        if (localExists.exitCode === 0) {
+            await execOrThrow('git', ['checkout', branchName]);
+        }
+        else {
+            // Branch exists only on the remote — create a local tracking branch.
+            await execOrThrow('git', ['checkout', '--track', `origin/${branchName}`]);
+        }
+    }
+    await execOrThrow('git', ['pull', 'origin', branchName]);
+    logger.success(`Branch ${branchName} is checked out in ${mainRepoRoot}`);
+    return mainRepoRoot;
+}
 /**
  * Remove a git worktree
  */

package/dist/services/git.js.map

@@ -1 +1 @@
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package/dist/services/worktree.d.ts

@@ -1,4 +1,4 @@
-import type { ClaudePermissionMode, ClaudeEntryPointMode, ClaudeEffortLevel } from '../types/index.js';
+import type { ClaudePermissionMode, ClaudeEntryPointMode, ClaudeEffortLevel, IsolationMode } from '../types/index.js';
 /**
  * Run the setup-worktree hook if defined in .idea1/settings.json
  */
@@ -54,25 +54,38 @@ export declare function prepareBranchForWorktreeWithFullName(fullBranchName: str
  */
 export declare function ensureIntegrationBranch(integrationBranchName: string, baseBranchName: string): Promise<void>;
 /**
- * Setup worktree isolation - creates worktree, runs hooks, optionally launches Claude
+ * Options shared by every branch-environment setup path.
  */
-export declare function setupWorktreeIsolation(fullBranchName: string, shortBranchName: string, baseBranchName: string, options?: {
+export interface BranchSetupOptions {
     projectItemUrl?: string;
     permissionMode?: ClaudePermissionMode;
     effort?: ClaudeEffortLevel;
     claudeEntryPointMode?: ClaudeEntryPointMode;
-}): Promise<string>;
+}
 /**
- * Finalize a worktree: run the repo-specific setup hook, invoke Claude per the
- * entry-point mode, and print the directory path and next-step hint.
- * Shared by setupWorktreeIsolation (new branches) and join-project-item (existing branches).
+ * Set up the working environment for a freshly-prepared branch, in whichever
+ * location the user chose: an isolated worktree or the main repository.
+ * Returns the directory the branch is checked out in.
  */
-export declare function finalizeWorktreeSetup(worktreePath: string, options?: {
-    projectItemUrl?: string;
-    permissionMode?: ClaudePermissionMode;
-    effort?: ClaudeEffortLevel;
-    claudeEntryPointMode?: ClaudeEntryPointMode;
-}): Promise<void>;
+export declare function setupBranchEnvironment(isolationMode: IsolationMode, fullBranchName: string, shortBranchName: string, baseBranchName: string, options?: BranchSetupOptions): Promise<string>;
+/**
+ * Setup worktree isolation - creates worktree, runs hooks, optionally launches Claude
+ */
+export declare function setupWorktreeIsolation(fullBranchName: string, shortBranchName: string, baseBranchName: string, options?: BranchSetupOptions): Promise<string>;
+/**
+ * Setup the branch in the main repository instead of a worktree: check it out
+ * in place, record its metadata, and finalize. The branch must already exist
+ * (prepared by the caller), mirroring setupWorktreeIsolation.
+ */
+export declare function setupMainRepoIsolation(fullBranchName: string, baseBranchName: string, options?: BranchSetupOptions): Promise<string>;
+/**
+ * Finalize a branch working environment: run the repo-specific setup hook (for
+ * worktrees only — the main repository is already set up), invoke Claude per
+ * the entry-point mode, and print the directory path and next-step hint.
+ * Shared by every setup path: new branches (worktree or main repo) and
+ * join-project-item (existing branches).
+ */
+export declare function finalizeBranchSetup(workingPath: string, isolationMode: IsolationMode, options?: BranchSetupOptions): Promise<void>;
 /**
  * Prepare repository for worktree creation - validates, fetches, and creates branch
  */

package/dist/services/worktree.d.ts.map

@@ -1 +1 @@
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package/dist/services/worktree.js

@@ -241,6 +241,17 @@ export async function ensureIntegrationBranch(integrationBranchName, baseBranchN
     await git.checkoutBranch(baseBranchName);
     logger.success(`Integration branch ${integrationBranchName} created`);
 }
+/**
+ * Set up the working environment for a freshly-prepared branch, in whichever
+ * location the user chose: an isolated worktree or the main repository.
+ * Returns the directory the branch is checked out in.
+ */
+export async function setupBranchEnvironment(isolationMode, fullBranchName, shortBranchName, baseBranchName, options = {}) {
+    if (isolationMode === 'main-repo') {
+        return setupMainRepoIsolation(fullBranchName, baseBranchName, options);
+    }
+    return setupWorktreeIsolation(fullBranchName, shortBranchName, baseBranchName, options);
+}
 /**
  * Setup worktree isolation - creates worktree, runs hooks, optionally launches Claude
  */
@@ -259,32 +270,60 @@ export async function setupWorktreeIsolation(fullBranchName, shortBranchName, ba
     // Enter worktree and set up upstream (pushes the metadata commit)
     await git.enterWorktreeAndSetup(worktreePath, fullBranchName);
     // Run the setup hook, optionally invoke Claude, and print next steps
-    await finalizeWorktreeSetup(worktreePath, options);
+    await finalizeBranchSetup(worktreePath, 'worktree', options);
     return worktreePath;
 }
 /**
- * Finalize a worktree: run the repo-specific setup hook, invoke Claude per the
- * entry-point mode, and print the directory path and next-step hint.
- * Shared by setupWorktreeIsolation (new branches) and join-project-item (existing branches).
+ * Setup the branch in the main repository instead of a worktree: check it out
+ * in place, record its metadata, and finalize. The branch must already exist
+ * (prepared by the caller), mirroring setupWorktreeIsolation.
+ */
+export async function setupMainRepoIsolation(fullBranchName, baseBranchName, options = {}) {
+    logger.step('Setting up branch in the main repository...');
+    const repoPath = await git.checkoutBranchInMainRepo(fullBranchName);
+    // Store project item URL and base branch in git config (fast local lookup).
+    // These must happen BEFORE commitBranchMetadata so it can gather all values.
+    if (options.projectItemUrl) {
+        await git.storeProjectItemUrl(options.projectItemUrl, fullBranchName);
+    }
+    await git.storeBaseBranch(baseBranchName, fullBranchName);
+    // Commit branch metadata JSON file so it's discoverable from any clone
+    await git.commitBranchMetadata(repoPath, fullBranchName, options.projectItemUrl);
+    await git.pushToRemote(fullBranchName);
+    await finalizeBranchSetup(repoPath, 'main-repo', options);
+    return repoPath;
+}
+/**
+ * Finalize a branch working environment: run the repo-specific setup hook (for
+ * worktrees only — the main repository is already set up), invoke Claude per
+ * the entry-point mode, and print the directory path and next-step hint.
+ * Shared by every setup path: new branches (worktree or main repo) and
+ * join-project-item (existing branches).
  */
-export async function finalizeWorktreeSetup(worktreePath, options = {}) {
-    // Run repo-specific setup hook if defined
-    await runSetupWorktreeHook(worktreePath);
+export async function finalizeBranchSetup(workingPath, isolationMode, options = {}) {
+    // Run repo-specific setup hook if defined. Skipped in the main repository,
+    // which is already set up for development.
+    if (isolationMode === 'worktree') {
+        await runSetupWorktreeHook(workingPath);
+    }
+    else {
+        logger.dim('Skipping setup-worktree hook (working in the main repository)');
+    }
     // Invoke Claude based on claudeEntryPointMode
     const claudeEntryPointMode = options.claudeEntryPointMode ?? 'launch';
     if (claudeEntryPointMode === 'inline' && options.projectItemUrl) {
-        claude.outputInlinePrompt(options.projectItemUrl, worktreePath);
+        claude.outputInlinePrompt(options.projectItemUrl, workingPath);
     }
     else if (claudeEntryPointMode === 'launch') {
         const prompt = options.projectItemUrl
             ? claude.getImplementationPrompt(options.projectItemUrl)
             : undefined;
-        await claude.runInteractive(prompt, worktreePath, options.permissionMode, options.effort);
+        await claude.runInteractive(prompt, workingPath, options.permissionMode, options.effort);
     }
     // Output the final directory path for the user
     logger.newline();
     logger.info('To continue working in this directory, run:');
-    logger.plain(`cd "${worktreePath}"`);
+    logger.plain(`cd "${workingPath}"`);
     logger.newline();
     logger.hint('Use `idea1 next` to transition to the next workflow step when ready.');
 }

package/dist/services/worktree.js.map

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package/dist/types/index.d.ts

@@ -133,6 +133,12 @@ export type ClaudeEntryPointMode = 'launch' | 'inline' | 'none';
  * Development workflow types for branching strategies
  */
 export type DevWorkflowType = 'independent' | 'integration';
+/**
+ * Where work on a branch happens.
+ * - 'worktree': a dedicated git worktree in a sibling directory (isolated)
+ * - 'main-repo': the branch is checked out in the main clone, in place
+ */
+export type IsolationMode = 'worktree' | 'main-repo';
 /**
  * Git branch info
  */

package/dist/types/index.d.ts.map

@@ -1 +1 @@
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package/dist/version.d.ts

@@ -1,2 +1,2 @@
-export declare const VERSION = "1.4.23";
+export declare const VERSION = "1.4.24";
 //# sourceMappingURL=version.d.ts.map

package/dist/version.js

@@ -1,3 +1,3 @@
 // Auto-generated by scripts/generate-version.js - do not edit manually
-export const VERSION = '1.4.23';
+export const VERSION = '1.4.24';
 //# sourceMappingURL=version.js.map

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@idea1/cli",
-  "version": "1.4.23",
+  "version": "1.4.24",
   "description": "CLI tool for Idea1.ai workflow automation - AI-assisted development workflows",
   "type": "module",
   "main": "dist/index.js",