"Every Panera restaurant I've ever been to has major design flaws."
I suspect that's because it doesn't seem like that franchise takes any control over site layout. For example, if you get a McDonald's franchise and then set up in a mall or storefront, you're required to have corporate site designers come in and lay out the place to McDonald's site standards, and they'll do stuff like line planning or moving walls and stuff to make it work. Panera places always look more like they provide setup but leave layout to the local owner, and because of that a lot of them aren't laid out very well. We have one of the rare ones where the layout is superbly done, with a foyer corral that leads right to the counter and proper separation of the serving and dining areas and everything. It's a great place to go, and after that place I started to notice it when a Panera is badly designed.