I think the future of Pokemon looks pretty much identical to the past of Pokemon, at least for the forseeable future. Handheld RPG's of the same formula with a few semi-important additions, console "Stadium" type games with each new handheld iteration and the odd spin off here and there (Snap, TCG, Pinball, Mystery Dungeon, etc).
The Pokemon MMO, while it seems a great idea in theory, will never happen. It just won't. Not for at least a decade, anyway.