When putting my tune back in for spring time

, I was removing the O2 sensor readings for my OR H-pipe and had a thought about the EGR system. I still have all the egr components, but what happens if I turn this function off with the Predator? Does it just turn the signal off to the egr valve to not open? Or should I go through the trouble of removing the egr system b4 programming?
Thank you.
04 Mustang GT
5-speed
U7146