The Most Amazing Idea Ever
You know it'd be amazing, and would be so much more dynamic.
(for those of you unaware of what MOBA is, it stands for Multiplayer Online Battla Arena. Think League of Legends, DOTA, etc. For those of you who don't know what those are, basically think of a real time strategy game, where you only command one unit and that unit has special powers. For those who don't know what Pokemon is, slap yourself)
Whenever I get enough Java knowledge, I'm definitely going at least try to get a 2D MOBA working.
Best part? Because it'd probably be 2.5D (isometric) like the rest of the recent-gen Pokemon games, you could realistically play it on the 3DS or DS. Wouldn't need that fast of internet either.