As long as seeing correct color is not important to you. I'm the kind of person who can immediately tell when an LCD is not at native resolution and what temperature the color is set at, so the strong yellow tint of f.lux was unbearable. If your eyes hurt at night, just alter your brightness contrast, or write a script to do that instead of messing with color!
Why not mess with colour? I have no need to see the 'correct' colour, if it's less comfortable to me. I actually leave my LCDs at a redder tint most of the time now, as I find it more comfortable. This is particularly useful as most desktop LCDs won't adjust their brightness down far enough for me. Laptops are better, since they actually bother to adjust the power of their backlight.
Since it clearly isn't to you, there's no reason not to mess with it!