I using No$gba for playing some pokemon fine except working on PC inside Pokemon Center and Pokeathlon because the speed problem. So, Desmume is best choice for anything.
__________________
My favorites games
1. Doom (all version) including my favorites editor, Doom Builder!
2. Pokemon (all version since 2000 on first emulator - SmyGb).
3. Final Fantasy (4, 5 and 6 on SNES, GBA and 9 on PS1).
4. Duke Nukem 3D Atomic Editon (under Eduke3d with Mapster included)
and many more.... :D