Hey, what you are describing is the same thing I get... its like a microstutter that doesnt affect your framerate.
I get it in windows as well as pretty much any game, video... anything that plays on the computer. I had it with my old computer and my new one. I think this is probably an LCD issue because I dont remember ever seeing it on my old CRT monitors... but I may hook one up to test it out soon and see what happens. I think this is a relatively minor issue, and one that most people arent sensitive to, so they dont see it... i do, and so do you apparently. I have just learned to live with it.
If its truly minor like that, then I would say just try to live with it, because it sounds like there is nothing else that would be causing it... have you tried other computers/other monitors... or combinations of both to see if you still get it? if it truly is just your computer, then i dont know, but if you find a solution please share, because even though i live with my very minor microstuttering, i would like it fixed.
Also, i dont remember from your first post, but are you running a crossfire/sli setup? because im pretty sure the way those render can also be a cause for microstuttering.
again, good luck.