I have a 1200 case and no, I don't see any risk to screen damage. The only screw on the inside is for the air seal. It stick out about 1/8" which is covered by 3/4" of padding. When placing the Empeg in the case, it sits with rear of the Empeg to the front of the case so the screw really isn't an issue.

I do wish I would have gotten the 1400 though. I don't have enough room for a power supply unless I jam in on top of the Empeg case.