diff --git a/scripts/bootstrap.sh b/scripts/bootstrap.sh
index 8d7fbd9..db6d14e 100644
--- a/scripts/bootstrap.sh
+++ b/scripts/bootstrap.sh
@@ -103,9 +103,12 @@ PY
   echo "Found the following potentially interfering .pth files:" >&2
   for p in "${pths[@]}"; do echo "  - $p" >&2; done
 
-  if [[ "$REMOVE_PTH" == "true" ]]; then
-    echo "Removing .pth files as requested..." >&2
-    for p in "${pths[@]}"; do rm -f "$p"; done
+  if [[ "$REMOVE_PTH" == "true" || "$FIX_URLLIB3" == "true" ]]; then
+    echo "Removing .pth files (automatic removal due to --fix-urllib3)..." >&2
+    for p in "${pths[@]}"; do
+      rm -f "$p"
+      echo "Removed: $p" >&2
+    done
   else
     if [[ "$QUIET" == "true" ]]; then
       echo "Detected interfering .pth files but cannot prompt in quiet mode. Re-run with --remove-pth to remove them automatically." >&2
@@ -116,7 +119,10 @@ PY
       echo "User declined to remove .pth files. Aborting." >&2
       return 3
     fi
-    for p in "${pths[@]}"; do rm -f "$p"; done
+    for p in "${pths[@]}"; do
+      rm -f "$p"
+      echo "Removed: $p" >&2
+    done
   fi
 
   # Re-run reinstall & verify
@@ -396,6 +402,10 @@ fi
 SCRIPT_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)"
 REPO="$(cd "$SCRIPT_DIR/.." && pwd)"
 USER_BIN="${XDG_BIN_HOME:-$HOME/.local/bin}"
+# If running as root, prefer a system-wide location that is likely on PATH (/usr/local/bin)
+if [[ $(id -u) -eq 0 && -w "/usr/local/bin" ]]; then
+  USER_BIN="/usr/local/bin"
+fi
 mkdir -p "$USER_BIN"
 if [[ -f "$USER_BIN/mm" ]]; then
   echo "Backing up existing $USER_BIN/mm to $USER_BIN/mm.bak.$(date +%s)"
@@ -419,7 +429,7 @@ chmod +x "$USER_BIN/mm"
 if "$USER_BIN/mm" --help >/dev/null 2>&1; then
   echo "Global 'mm' launcher verified: $USER_BIN/mm runs correctly."
 else
-  echo "Warning: Global 'mm' launcher failed to run in this shell. Ensure $USER_BIN is on your PATH and the venv is installed; try: $VENV/bin/python -m medeia_macina.cli_entry --help" >&2
+  echo "Warning: Global 'mm' launcher failed to run in this shell. Ensure $USER_BIN is on your PATH and the venv is installed; try: $VENV_PY -m medeia_macina.cli_entry --help" >&2
 fi
 
 # Ensure the user's bin is on PATH for future sessions by adding to ~/.profile if needed