I'm going to give it a try, even though I have a JK. It looks like the top over the driver rides above the channel as we have been saying, and that the top over the back seat will clip into the rails much like the front of the side panels do.
One thing that is true, is that you need to reverse the order exactly, so when you are trying to place the top over both sets of doors, the windows need to be out, and the sail panels not yet attached.
As an aside, when JUST opening the sunrider, DO NOT pinch the clips midway back over the drivers/passengers door. If you do, the entire top will have to be loosened in order to get it to close. Yes, I speak from experience.