>>51108786A. Floating islands in the sky (likely held up by the box legendary). You only have access to adjacent islands as they float nearer or further from each other. Fly still works, but your range is dependent on your Flying Pokemon's level and how many badges you've got.
B. A Pokemon game where the League is starting up and you're on your journey, but a bit after the third badge or so, the evil team (or the box legendary) causes the whole region to get fucked. You never get any of the other badges, and the rest of the game is spent trying to stop this before it gets worse and hopefully save everyone. Pokemon Centers are uncommon, too, and there might even be some basic survival mechanics.
C. An episodic game where you travel the world dealing with one crisis after another. Not open world, unless a specific mission is particularly open. There's an overarching plot you're building towards, too.