Well, first of, the audio. Actually I'm not that biased on it. When it first turned on I tossed off the headset like a horse throws off its rider, even yelping a little. But that was mostly due to the insane volume on the music, not its particulars. Now, the music has merits determined entirely by your intent with. Although somewhat monotonous in its proceedings it had the characteristics of either alien worlds in the style of the Twilight Zone (or The Outer Limits - whichever series you like better :P) or the sort of musical style you'd associate with psychedelic mental illnesses. Given the backstory I guess neither was the intention, but disregarding the mismatch I wouldn't discount it *entirely*. But I am glad that people won't risk going deaf when playtesting your game with the fix :P
On the gameplay mechanics I agree with Dan on the variation and possibilities, but I wouldn't really call it a problem if you didn't manage to put up some well-thought puzzles. In my experience puzzles require some degree of inspiration and if you're sweating just trying to get the work done in the allotted time frame I wouldn't worry too much about their immediate genius :)
However, the teleporters did move far too slowly, I think that too. You mentioned that you didn't have proper ways of doing its speed. Have you considered a reverse logarithmic movement scale, starting the teleporter at a high base speed that slows down as it comes farther away from the player? Hm... might cause problems if you rely on using the minimap to hit a target far away (more often than just in this copy), the problem would be no less than it is now.
It may sound like a bad patch, but I did actually like the player character's movements. They felt less strained than the teleporters, smooth and pleasant. It worked nice.
A final note on the graphics. I have a feeling they were rushed a bit. In particular it seems you used a lot of generating methods in your editor of choice. The smoke effects on the ground, the colour variations in poison pools and the HUD icons, they rarely work as well as intended. Personally I feel that a simple two-colour image made by hand has a far better effect than something calculated by the system :)
Regardless of the criticisms, you actually managed to make a complete game experience, something not all the entries can claim. Well done.