As soon as the game pops up (not the launcher but the actual game), the colours appear to off and saturated. When I went into a world, the blue and red colours had shifted, as if you were looking at an older 3d film (the ones where you wore the blue/red glasses).
I've attached a screen grab of in game as an example of what the problem looks like.
Environment
Latest version of Minecraft on MAC OXS Lion 10.7.5
Yes it's 3d because you switched it to 3d. Turn off 3d anaglyph.