diff --git a/apps/backend/runners/github/context_gatherer.py b/apps/backend/runners/github/context_gatherer.py
index 4a8b654f..087a959c 100644
--- a/apps/backend/runners/github/context_gatherer.py
+++ b/apps/backend/runners/github/context_gatherer.py
@@ -201,13 +201,15 @@ class PRContext:
 class PRContextGatherer:
     """Gathers all context needed for PR review BEFORE the AI starts."""
 
-    def __init__(self, project_dir: Path, pr_number: int):
+    def __init__(self, project_dir: Path, pr_number: int, repo: str | None = None):
         self.project_dir = Path(project_dir)
         self.pr_number = pr_number
+        self.repo = repo
         self.gh_client = GHClient(
             project_dir=self.project_dir,
             default_timeout=30.0,
             max_retries=3,
+            repo=repo,
         )
 
     async def gather(self) -> PRContext:
@@ -953,14 +955,17 @@ class FollowupContextGatherer:
         project_dir: Path,
         pr_number: int,
         previous_review: PRReviewResult,  # Forward reference
+        repo: str | None = None,
     ):
         self.project_dir = Path(project_dir)
         self.pr_number = pr_number
         self.previous_review = previous_review
+        self.repo = repo
         self.gh_client = GHClient(
             project_dir=self.project_dir,
             default_timeout=30.0,
             max_retries=3,
+            repo=repo,
         )
 
     async def gather(self) -> FollowupReviewContext:
diff --git a/apps/backend/runners/github/gh_client.py b/apps/backend/runners/github/gh_client.py
index 9b08ff02..d6e7ddbd 100644
--- a/apps/backend/runners/github/gh_client.py
+++ b/apps/backend/runners/github/gh_client.py
@@ -84,6 +84,7 @@ class GHClient:
         default_timeout: float = 30.0,
         max_retries: int = 3,
         enable_rate_limiting: bool = True,
+        repo: str | None = None,
     ):
         """
         Initialize GitHub CLI client.
@@ -93,11 +94,14 @@ class GHClient:
             default_timeout: Default timeout in seconds for commands
             max_retries: Maximum number of retry attempts
             enable_rate_limiting: Whether to enforce rate limiting (default: True)
+            repo: Repository in 'owner/repo' format. If provided, uses -R flag
+                  instead of inferring from git remotes.
         """
         self.project_dir = Path(project_dir)
         self.default_timeout = default_timeout
         self.max_retries = max_retries
         self.enable_rate_limiting = enable_rate_limiting
+        self.repo = repo
 
         # Initialize rate limiter singleton
         if enable_rate_limiting:
@@ -254,6 +258,28 @@ class GHClient:
         # Should never reach here, but for type safety
         raise GHCommandError(f"gh {args[0]} failed after {self.max_retries} attempts")
 
+    # =========================================================================
+    # Helper methods
+    # =========================================================================
+
+    def _add_repo_flag(self, args: list[str]) -> list[str]:
+        """
+        Add -R flag to command args if repo is configured.
+
+        This ensures gh CLI uses the correct repository instead of
+        inferring from git remotes, which can fail with multiple remotes
+        or when working in worktrees.
+
+        Args:
+            args: Command arguments list
+
+        Returns:
+            Modified args list with -R flag if repo is set
+        """
+        if self.repo:
+            return args + ["-R", self.repo]
+        return args
+
     # =========================================================================
     # Convenience methods for common gh commands
     # =========================================================================
@@ -295,6 +321,7 @@ class GHClient:
             "--json",
             ",".join(json_fields),
         ]
+        args = self._add_repo_flag(args)
 
         result = await self.run(args)
         return json.loads(result.stdout)
@@ -334,6 +361,7 @@ class GHClient:
             "--json",
             ",".join(json_fields),
         ]
+        args = self._add_repo_flag(args)
 
         result = await self.run(args)
         return json.loads(result.stdout)
@@ -352,6 +380,7 @@ class GHClient:
             PRTooLargeError: If PR exceeds GitHub's 20,000 line diff limit
         """
         args = ["pr", "diff", str(pr_number)]
+        args = self._add_repo_flag(args)
         try:
             result = await self.run(args)
             return result.stdout
@@ -396,6 +425,7 @@ class GHClient:
             args.append("--comment")
 
         args.extend(["--body", body])
+        args = self._add_repo_flag(args)
 
         await self.run(args)
         return 0  # gh CLI doesn't return review ID
@@ -574,6 +604,7 @@ class GHClient:
             args.extend(["--subject", commit_title])
         if commit_message:
             args.extend(["--body", commit_message])
+        args = self._add_repo_flag(args)
 
         await self.run(args)
 
@@ -586,6 +617,7 @@ class GHClient:
             body: Comment body
         """
         args = ["pr", "comment", str(pr_number), "--body", body]
+        args = self._add_repo_flag(args)
         await self.run(args)
 
     async def pr_get_assignees(self, pr_number: int) -> list[str]:
diff --git a/apps/backend/runners/github/orchestrator.py b/apps/backend/runners/github/orchestrator.py
index 3ec71724..a06c8bd1 100644
--- a/apps/backend/runners/github/orchestrator.py
+++ b/apps/backend/runners/github/orchestrator.py
@@ -129,6 +129,7 @@ class GitHubOrchestrator:
             default_timeout=30.0,
             max_retries=3,
             enable_rate_limiting=True,
+            repo=config.repo,
         )
 
         # Initialize bot detector for preventing infinite loops
@@ -300,7 +301,9 @@ class GitHubOrchestrator:
         try:
             # Gather PR context
             print("[DEBUG orchestrator] Creating context gatherer...", flush=True)
-            gatherer = PRContextGatherer(self.project_dir, pr_number)
+            gatherer = PRContextGatherer(
+                self.project_dir, pr_number, repo=self.config.repo
+            )
 
             print("[DEBUG orchestrator] Gathering PR context...", flush=True)
             pr_context = await gatherer.gather()
diff --git a/apps/backend/runners/github/providers/github_provider.py b/apps/backend/runners/github/providers/github_provider.py
index 558d0fb2..190d3baf 100644
--- a/apps/backend/runners/github/providers/github_provider.py
+++ b/apps/backend/runners/github/providers/github_provider.py
@@ -56,6 +56,7 @@ class GitHubProvider:
             self._gh_client = GHClient(
                 project_dir=project_dir,
                 enable_rate_limiting=self.enable_rate_limiting,
+                repo=self._repo,
             )
 
     @property