I spent some more time this weekend fooling around. I took a bunch of the interior trim out and removed the headliner, roof rack, and roof trim. There was mouse poop up on the headliner. Those guys get everywhere! I have one stuck bolt on the drivers seat and unfortunately it's the one behind the transfer case. I think I can get it free but it's been raining all week and the ground is still damp. I didn't feel like getting all mudded up today. I worked some on the dash, but I want to get the front seat out first to have a little bit more room to maneuver. The parcel shelf is now out though.
I now see why the doors have trouble with the handles. It looks like the linkage is sloppy and the springs are worn out. Everything is electric and I don't know if I'll be keeping it that way or not. All the motors would need a refresh and I'm not sure how to do that, but it might be worth looking into.
I invested in a cheap car cover from autozone. The wagon size house brand works fine! It was about $25 too.