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Someone was looking for what sounds like something similar on the Kongregate forums, and eventually found out that the one they were looking for was Prior— maybe that's your game? https://www.kongregate.com/games/krangGAMES/prior
Another suggestion in the thread was Kolm. http://www.kongregate.com/games/ArmorGames/k-o-l-m?acomplete=kol
Edited by livewithstyleIt is indeed Prior, thank you!
mwop
I remember seeing this on Kongregate. It might have also been on Jay is Games, can't remember. The player character is some type of blob thing in an abandoned laboratory, but I think all other people in the game were drawn just like the player character. One of the very first notes you find is some cutesy explanation of the controls like "this subject likes to move around with the arrow keys and jump with the space bar" that serves in contrast to the later plot developments.
The art-style is mostly minimalist and you learn about the plot by collecting cut-out newspaper snippets and papers that are left around in the lab. The main idea was that a scientist had invented some sort of anti-gravity device (which you find in-game and is used as a mechanic) that the military somehow used as a weapon to wipe out fleets of opponents much faster than normal. In response, the scientist committed suicide after realizing what his invention was used for, but you only learn that detail in one of the endings.
There was one particular room with three exits to it (not including the one you came in from) and each exit offered a different ending. Of those endings I remember two: you escape the laboratory and see a mushroom cloud form over a city in the difference, or you gradually go deeper into the laboratory and find the room where the scientist had killed himself and scrawled the words "I'M SORRY" in blood on the wall.
Edited by iwantedtoaddsomething