Yes, reducing the blue RGB setting on your monitor will affect you the same as when f.lux is engaged. The thought is that blue light keeps you awake and contributes to eye strain more than other colors. Worth a shot.
Somewhere there is a way to get RGB adjustment percentages from color temperature (which f.lux uses), but I don't think the problem requires that kind of precision. I'd set it to look like f.lux, then adjust the blue up/down every few days to see what works best for your eyes.