lol, i noticed Tobriand did it so i asked him how.
you download a program called "makesmc", you copy your GP32 SMC to a folder in windows, then run makesmc and it'll create a .smc file for you which has the contents of the folder in, than using GeePee you just do "load SMC" instead of "Load .FXE"
its a little fiddly, and crashs after a few minutes with me as the firmware im using (to emulate with) doesn't like the emulator too much.