Great work... reminds of my own school games :)
The flash is very well done, interesting to play. More levels would be appreciated :)
This entire game reminds me of my own schooltime paperbased games. Though I always thought these games are only played by me :D
My personal favorite is/was to draw a spaceship in side 2D view, and attach a "biology experiment module" to it, then simulate the way of the outbreaking alien, and see if the crew can get to the escape pods... One ship takes up a whole Chemistry lesson! :D I'll consider making a Flash from it after your great piece ;)