I played all through Fallout 3 thinking the same thing about V.A.T.S. and thought it was the same in Fallout New Vegas. I thought that when you enter V.A.T.S. mode, the higher the % on an enemy's limbs, the higher the chance of hitting that specific bodypart would be. I was reading through the Fallout New Vegas manual earlier today, and it seems that I've had it wrong this whole time. It seems it's actually better to hit a bodypart with as small a % as possible, as that is the "condition" of that bodypart, not the chance you can hit it.
Is this correct, or do I have it all wrong? Basically, when in V.A.T.S. mode, is it better to hit an enemy's bodypart with a high % on it or a low %?
Thanks guys.