So I recently was playing Call of Duty: Advance Warfare on my Xbox One. The problem is that after some time (50 mins+), my left thumb started to hurt. I kept on playing, and my thumb kinda hurts now. How do I play (or how do I use the controller) while avoid getting hurt? In the past when I used PS2 controllers there was no pain and I use my PC for countless hours and never experienced any pain. I think am just using the controller incorrectly, how do I avoid this pain?
To be honest, I really think it's a combination of overuse of your thumbs (~an hour) and the unfamiliar controller that's doing you in, causing "Gamer's Thumb". You said that you used Playstation controllers before, with no issue. Playstation controllers are a fair bit smaller, and a bit different in terms of layout compared to Xbox controllers (namely the left thumbstick and D-pad are switched).
This would probably cause discomfort after a while, as you're not as familiar with this controller as you are with a PS controller. So, like in this post, give it a break, then come back to it after a while.
I find that it is the ring around the thumb grips. On COD I spam the sprint button excessively, and the rim design of the controller starts to rub my thumb after a while. I filled the hollows partly in with bluetac, that helped heeeeps....:]
I think I found the cure! I found a magnetic connect leveraging system at the game developers expo. I had serious gamers thumb that almost made me give up on gaming altogether. It's from thumbglovepro.Com and relieved my pain almost instantly. There is no pushing down anymore which after reading up on it(gamers thumb/repetitive stress ingury) seems to be most of the problem. My game also went up and there is no more slippage or stutter. I met the owner in person and later got the accessory kit that had elevators and a d pad toggle kit in it. It's been a couple months and I can't play without it. It put me back in the game.