I'm sure Game Freak would be clever enough to come up with a compromise, it's just one of those 'have to see it' things though. :D
But of course... your point exactly. Why would Game Freak ever decide to make a Pokémon game with paper characters on an advanced 3D system? It's understandable why they did it on the Nintendo DS, due to ROM size limitations and graphical lag when making everything 3D. But now we have the 3DS, which now developers can freely have as many as a million 3D objects on the map, as well as ROM sizes can end up going as large as 8 GB, which is even more than the Wii itself.
I'm not sure, sorry. The announcement will be made when they announce it, they won't set a time for it, but you think about when they revealed Snivy, Tepig and Oshawott on the English Pokémon website and how we had to keep refreshing the page. It's exactly the same, they're owned by The Pokémon Company, only difference is that the English Pokémon website is owned by The Pokémon Company International which is owned by the Japanese TPC.