Here's my wishlist of stuff I want:
Main game
-Customizable characters. Kind of explains its self.
-MOAR fire types. The series doesn't have enough, even though we have a billion water and grass types.
-A region with more gyms. I'm not really interested in revisiting an older region, but an overall larger world that broke the 8 gym mold would be cool.
-Elite 4 level choice after you've beaten them for the second time. Elite 4 is a pretty good way, I find, of leveling pokemon. So the elite 4 doesn't get left in the dust I think being able to choose la level set for their pokemon would be cool. Like "40-55", "50-65","60-75" etc ect.
-2 legendaries at most
Online: (snowball chance in hell of a lot of this happening, because it's online stuff)
-Random online battles! If nintendo is worried about creepies, just let this choice of play go without voice chat.
-have the ability to create tournies. This **** ain't gonna happen, I know.
-Online double-battle gyms. Gyms can you can run with your friends online.
-Wins/Losses tracking