I struggle with Pokemon being in three dimensions. The 3d we have now has ridiculously few polygons and it upsets me as a game designer (although I'm sound so I don't know why it bothers me).
To make Pokemon into the kind of serious, mature thing that we're sort of discussing here would in my opinion remove all of it's current personality and leave it feeling like an entirely different thing. I mean you couldn't have Sigumori artwork Pokemon in this game, they'd be entirely redesigned into realistically terrifying monsters. Associating that with the nostalgia of todays Pokemon is difficult.
Fantastic game, but totally abrupt and slightly disturbing considering its roots.