You know, I've been thinking about this for quite a while. Even though I feel that Team Rocket has been quite overdone and that sometimes their appearances get rather cliche and repetitive, they're also one of my favorite characters of all time on the anime, and I don't think I could picture an episode of Pokemon without them (after all, they've been appearing on the anime in some way, shape, or form since Episode 2.)
It would be nice to see Team Rocket get more involved in the storyline with Team Galactic though. It would be funny to see Team Rocket battle alongside Ash & co. against Team Galactic.
Also, even though Jessie's character has received considerable character development with her contests, I feel that James still needs some more attention in the anime. Maybe he could take up an interest in Pokemon breeding (yea, right) or begins serious Pokemon training/battling (imagine James taking on a gym leader!)
In the end, though, I doubt Team Rocket will change. After all, they've had largely the same role for over 500 episodes. If I had to choose between them being written out or continuing on the show, I'd vote for Team Rocket staying any day. They provide the comic relief for the anime.