Odd timing issues such as these can often be caused by a computer that is below our minimum specifications for the game. Of particular importance is the CPU. It should be at least a 2.8 GHz Intel® Core™2 Duo or equivalent.
Even with a CPU that is at (or slightly above!) the minimum spec, if you have applications running in the background or a controller emulator, that might be hogging up some of your processing power. If you are seeing these issues, shut down all your background applications. That may let you play a bit longer before having problems again.