@maya: The skeleton meter is the Threat Meter. If you let enemies escape the screen, it fills. When it fills completely, a Battleship arrives. I don't have any idea what a Battleship does, though...
I'd love to have seen what the aliens looked like in the end. Maybe have a "Final Episode" where you fight them outside of their control pod? Also, Mr. Commando-Type Guy should have said some one-liners during the game.
Excellent game, but locating objects can be pretty hard. I still found them all on my own. Try to find a way to make collectable objects stand out. Other than that, 5/5 great game.