So I've finally fixed the main issues.
Anyways, there is now a visual representation of the enemies light of sight. When you continue, you keep all the keys that you've gathered, the laser room wont kill you in .0000000001 secs, and you can get rid of your alert by simply running into another room. Its much easier, but now someone might be able to beat it.

*Lots of good comments a suggestions, Thanks Very much to everyone who left reviews. The Laser Room will be toned down, and I'm fixing the alert thing so that once your alert timers runs down, the guards retreat. Also look for the updates listed below. They probably won't be a long while, so check back in a month or so. Thanks again for the reviews!

*Hey! Thanks for the frontpage! Thats freakin nuts man.

Sooo,
Mixing MGS with Pico and NG character... AWESOME RIGHT?!

Give it a shot, give me some feedback.
-Victor

PS -
Thanks to the artists in the Audio Portal for some sick tunes!
HAPPY PICO DAY!