Got the water pump and timing belt replaced, ended up just keeping timing marks aligned in stock orientation as fsm says. Weird thing happened though.
After finishing job I started the car to burp the cooling system, all was well started fine and idles smooth, however once it got to operating temp it's like a switch flipped...idle was super rough and when given throttle would miss and sputter. I made sure all alignment marks were correct when I buttoned it up and the car ran perfectly for around 15 minutes. I can't figure out what the issue is. I let the car cool down and even on a cold start its running rough. Any suggestions?