I've thought about having the front as one big screen door made with hardware cloth. I was considering it for a smaller 4x8 sized one. Haven't done it yet.
The one problem with what you suggest is the roof of the scratch shed is pretty low, especially in the front, at about 4 feet. You have to bend over to get in there, and don't stand up fast. I have only hit my head once in mine so far.
The main door on the side works for getting anything in and out. I use a grain shovel to clean mine out. I just toss it in the run.
Assuming you are planning to have the door threshold 8-12 inches high. You could design it to open and lock shut with bolts. Then you would have a floor level clean out.
It all depends on what works best with your coop/yard set up. As long as you maintain the sides when it is all closed up, it won't affect the air cushion design.