I have to admit I am a big FPS/RTS hybrid fan, most notably of the Savage2 kind.
Given that disclamer, the territory game mechanic and some other aspects of this game are already a bit RTSish so maybe going even further in that direction could be interesting.
Adding a commander role for example, that can build structures while in ethernet mode, or something like that could be cool? Other ideas welcome!
It also seems like there will be a RTS framework donated for project GREED, so some aspects of that could probably be borrowed.