Big fan of F.lux, been using it since last year. Wish I would have found it earlier!
I was real skeptical of the program since I was used to having calibrated monitors and working on projects that required immaculate color reproduction. Prior to this, I just had a generic bias lighting setup similar to the ones posted earlier in the thread. When I found out that there was an option in f.lux to disable the adjusted color temperature when necessary, I fell in love. It's been most helpful at night, since my setup is in the same room as the bedroom; wife and baby need to sleep without having to be kept awake with dual-monitor white light. (The mechanical keyboard is another story; browns with O-Rings have gained my wife's approval. She said it's better with the O-Rings than without... that was a literal nightmare for her.) Eye-strain has been reduced quite a bit from using the program. I set my monitors to the "slow" transition so as to not be entirely drastic when switching over in 20s.
I play quite a bit of SC2 and the adjusted light transfers itself over, though I am running SC2 in Windowed Mode (Fullscreen). Haven't tried going full-screen and seeing if F.lux still runs properly.
Highly recommended app (for those who do not need color accuracy. And if you do, you can always disable F.lux during that time)!