I think this is quite possibly the most ridiculously stupid game idea I've seen on kongregate in a long time. I would rather gouge my eyes out with a rusty spoon than play this stinking pile of shit.
Pallanza has pinned quite a few of the problems down. The game definitely has a certain measure of originality, but the balancing is completely off. And something that he/she didn't mention: the introduction paragraph needs to be proofread; there are a bunch of mistakes in the grammar.
This definitely deserves a sequel. Very interesting plot, and an awesome setting.
My only complaints are that it's rather short, and it was not very consistent in difficulty. Some problems were easy to figure out, but some of them (especially the alien language parts) were frustratingly difficult without the walkthough.
Why did you even upload it here? Sure, it's a great starter for learning flash, but really, does it need to be online where millions of people can make fun of your useless "game"? Maybe you should do something, like add a timer that tells you how many milliseconds you took to click the target, and track the fastest time through the game. That way you'd learn a bit more about flash, and give us something that was at least a bit more like a real game.