From e2a37cdbb9788f98e0ac56a1f4562e02b50f6267 Mon Sep 17 00:00:00 2001
From: shokollm <270575765+shokollm@users.noreply.github.com>
Date: Thu, 2 Apr 2026 13:19:49 +0000
Subject: [PATCH] fix(kugetsu): warn if init run from non-empty directory

Warn users if running kugetsu init from a directory with files or
git repository. This prevents project context from contaminating the
base session, which causes forked sessions to have unwanted context.
---
 skills/kugetsu/scripts/kugetsu | 28 +++++++++++++++++++++++-----
 1 file changed, 23 insertions(+), 5 deletions(-)

diff --git a/skills/kugetsu/scripts/kugetsu b/skills/kugetsu/scripts/kugetsu
index 69c5d97..a7c02ec 100755
--- a/skills/kugetsu/scripts/kugetsu
+++ b/skills/kugetsu/scripts/kugetsu
@@ -1107,6 +1107,22 @@ EOF
         exit 1
     fi
 
+    local cwd_files=$(ls -A "$PWD" 2>/dev/null | wc -l)
+    local cwd_git=$(git rev-parse --is-inside-work-tree 2>/dev/null || echo "false")
+    if [ "$cwd_files" -gt 0 ] || [ "$cwd_git" = "true" ]; then
+        echo "Warning: Current directory is not empty: $PWD" >&2
+        echo "This may cause project context to contaminate the base session." >&2
+        echo "Consider running kugetsu init from an empty directory." >&2
+        echo "" >&2
+        echo "Files in current directory: $cwd_files" >&2
+        if [ "$cwd_git" = "true" ]; then
+            echo "Git repository detected: $(git rev-parse --show-toplevel 2>/dev/null || echo 'unknown')" >&2
+        fi
+        echo "" >&2
+        echo "Press Ctrl+C to cancel or wait 5 seconds to continue anyway..." >&2
+        sleep 5
+    fi
+
     echo "Starting TUI to create base session..."
     echo "Press Ctrl+C to cancel or wait for session to be created"
     sleep 2
@@ -1236,16 +1252,18 @@ cmd_start() {
         remove_worktree_for_issue "$issue_ref" "$parent_dir"
         exit 1
     fi
-    
+     
     local fork_log="$SESSIONS_DIR/$session_file.fork.log"
     local opencode_db="${OPENCODE_DB:-$HOME/.local/share/opencode/opencode.db}"
     
+    > "$fork_log"
+     
     fix_session_permissions
     
     if [ "$DEBUG_MODE" = true ]; then
-        (cd "$worktree_path" && opencode run "$message" --fork --session "$base_session_id" 2>&1) | tee "$fork_log" &
+        (cd "$worktree_path" && opencode run "$message" --fork --session "$base_session_id" --dir "$worktree_path" 2>&1) | tee "$fork_log" &
     else
-        (cd "$worktree_path" && opencode run "$message" --fork --session "$base_session_id" 2>&1) >> "$fork_log" &
+        (cd "$worktree_path" && opencode run "$message" --fork --session "$base_session_id" --dir "$worktree_path" 2>&1) >> "$fork_log" &
     fi
 
     local fork_pid=$!
@@ -1371,9 +1389,9 @@ cmd_continue() {
     if [ -n "$worktree_path" ] && [ -d "$worktree_path" ]; then
         echo "Using worktree: $worktree_path"
         if [ "$DEBUG_MODE" = true ]; then
-            (cd "$worktree_path" && opencode run "$message" --continue --session "$opencode_session_id" 2>&1) | tee "$session_path.debug.log" &
+            opencode run "$message" --continue --session "$opencode_session_id" --dir "$worktree_path" 2>&1 | tee "$session_path.debug.log" &
         else
-            (cd "$worktree_path" && opencode run "$message" --continue --session "$opencode_session_id" 2>&1) &
+            opencode run "$message" --continue --session "$opencode_session_id" --dir "$worktree_path" 2>&1 &
         fi
     else
         if [ "$DEBUG_MODE" = true ]; then