diff --git a/scripts/bootstrap.py b/scripts/bootstrap.py
index 633c132..d180225 100644
--- a/scripts/bootstrap.py
+++ b/scripts/bootstrap.py
@@ -69,14 +69,21 @@ def _ensure_interactive_stdin() -> None:
     if not sys.stdin.isatty():
         try:
             if platform.system().lower() == "windows":
-                sys.stdin = open("CONIN$", "r")
+                # Ensure the handle is actually opened for reading correctly
+                new_stdin = open("CONIN$", "r")
+                sys.stdin = new_stdin
             else:
                 sys.stdin = open("/dev/tty", "r")
-        except Exception:
-            pass
+            
+            # Flush existing buffers to ensure clean state
+            if hasattr(sys.stdin, 'flush'):
+                sys.stdin.flush()
+        except Exception as e:
+            if "--debug" in sys.argv:
+                print(f"DEBUG: Failed to re-open stdin: {e}")
 
 
-def run(cmd: list[str], quiet: bool = False, debug: bool = False, cwd: Optional[Path] = None) -> None:
+def run(cmd: list[str], quiet: bool = False, debug: bool = False, cwd: Optional[Path] = None, env: Optional[dict[str, str]] = None) -> None:
     if debug:
         print(f"\n> {' '.join(cmd)}")
     
@@ -85,12 +92,13 @@ def run(cmd: list[str], quiet: bool = False, debug: bool = False, cwd: Optional[
             cmd, 
             stdout=subprocess.DEVNULL, 
             stderr=subprocess.DEVNULL,
-            cwd=str(cwd) if cwd else None
+            cwd=str(cwd) if cwd else None,
+            env=env
         )
     else:
         if not debug:
             print(f"> {' '.join(cmd)}")
-        subprocess.check_call(cmd, cwd=str(cwd) if cwd else None)
+        subprocess.check_call(cmd, cwd=str(cwd) if cwd else None, env=env)
 
 
 REPO_URL = "https://code.glowers.club/goyimnose/Medios-Macina.git"
@@ -787,14 +795,20 @@ def main() -> int:
             return False
 
         try:
-            if script_path is not None:
+            if is_in_repo and script_path is not None:
                 default_install = repo_root
             else:
                 default_install = Path.cwd() / "Medios-Macina"
 
             print("\n[WEB INSTALLER MODE]")
+            print(f"Current working directory: {Path.cwd()}")
             print("Where would you like to install Medios-Macina?")
-            install_dir_raw = input(f"Installation directory [{default_install}]: ").strip()
+            
+            # Use sys.stdin.readline() to be more robust than input() in some terminal environments
+            sys.stdout.write(f"Installation directory [{default_install}]: ")
+            sys.stdout.flush()
+            install_dir_raw = sys.stdin.readline().strip()
+            
             if not install_dir_raw:
                 install_path = default_install
             else:
@@ -992,7 +1006,14 @@ def main() -> int:
             hydrus_script = repo_root / "scripts" / "hydrusnetwork.py"
             if hydrus_script.exists():
                 try:
-                    subprocess.check_call([sys.executable, str(hydrus_script)])
+                    # Clear out project-venv related env vars to prevent auto-reexec
+                    env = os.environ.copy()
+                    env.pop("VIRTUAL_ENV", None)
+                    env.pop("PYTHONHOME", None)
+                    env.pop("PYTHONPATH", None)
+                    # We use sys.executable (the one running bootstrap.py) to run hydrusnetwork.py
+                    # This ensures it uses the same environment that started the bootstrap.
+                    subprocess.check_call([sys.executable, str(hydrus_script), "--no-project-venv"], env=env)
                 except subprocess.CalledProcessError:
                     print("\nHydrusNetwork setup exited with an error.")
                 except Exception as e: