Since yesterday only (the day of season 2 patch I didn't notice this), my game is n high contrast. It's not extreme, but darks are darker and lights too bright - the glow off light blue asteroids for example or the bright area in the background of alpha centauri enemy signal contact battle are blinding.
The UI is also higher contrast and it's hurting my eyes after a while.
GeForce 9800 GT driver 257.21
I also recently (before the patch though) installed nTune. I submitted a bug report, but got a sort of default reply/acknowledgement. Maybe the forum can help figure it out.