Wrong, actually.
1. Agahnim, Hyrule Castle, ALttP
2. Agahnim, Ganon Tower, ALttP
3. Nightmare Agahnim, Windfish Egg, LA
4. Phantom Ganon, Forest Temple, OoT
5. Ganondorf, Ganon Tower, OoT
6. Phantom Ganon, Forsaken Fortress, WW
7. Phantom Ganon, Ganon Tower, WW
8. Phantom Ganon, Hyrule Castle, FSA
9. Phantom Ganon, Palace of Darkness, FSA
10. Ganon, Palace of Winds, FSA
11. Vaati, Dark Hyrule Castle, TMC
11 in all, folks. Next question when I think of it