that couldnt be the flasher, trust me he has tunes hundreds of cars even with full motor swaps and nothing like that has ever happened, maybe it has to do with the svt pcm swap and not the motor, maybe it has something to do with that pcm. cause a flasher wouldnt stop the fuel pump from coming on,it has nothing to do with a fuel pump ya know. and the buttons not going is probly affected and not wanting to be pushed cause its throwing codes. trust me its fine i was there when he tuned it and sent it to you and it was 100% purfect.