>>56539950A gym out in the middle of nowhere would be cool. If it's a dungeon, then you don't have to worry about the gym itself having a puzzle.
I've wanted to experiment with there being optional gyms that still give badges which count toward the total needed to challenge the Elite Four. Kind of like how the first season of the anime had random gyms that you never see. Or gen 8's "18 gyms in the lore" idea, but less stupid.