The difference genuinely does not affect me. I spend most of my time playing with a PS3 controller but when I use an Xbox controller at my friend's house I don't think "gosh these sticks are in the wrong place!" and then struggle.
What I do struggle with, as d21lewis mentions, is the actually layout of the buttons. When it says things like "press y to switch weapons" or "press x to reload" I have to physically look at the controller, by which time I'll probably be dead. The shoulder buttons seem to be the other way around with most shooters too. Ah well, comes with practice.







