Unfortunately, the better chains are the smaller chains as a general rule.
I'm not a big burger eater, so I look for fast food that isn't ground beef on a bun. I don't get out of the Southeast much any more, so I don't know if you'll find any of these, but here's a few suggestions.
Chicken: Zaxbys & Guthries. Zaxby's has big salads, wings and chicken fingers. Guthries specializes in chicken fingers.
Sandwiches: McAlisters & Jasons. You order at the counter and someone brings you your food. McAlisters has an expanded menu with baked potatos, paninis & even a muffeletta that is decent. I haven't been in a Jasons lately, but liked what I had.
Mexican: Moes Southwest Grill, Salsaritas & Chipotle Grill. Similar "fresh mex" with burritos and salads. Each has its fans. They seem more alike than different to me.
Enjoy your trip.