Post any with links.
King Bulbin/Bridge Battle (Twilight Princess) - http://www.youtube.com/watch?v=aaZ6dMX5tyk - Used in every fight with King Bulbin.
Stallord Second Half (Twilight Princess) - http://www.youtube.com/watch?v=MaEhS-tH ... re=related - Used in the second halves of the Stallord and Diababa fights.
Starwolf Theme (Starfox Assault) - http://www.youtube.com/watch?v=M2sGNGGEbOo - Used in fight with Starwolf and while riding on the Wolfen.
Magus (Chrono Trigger) - http://www.youtube.com/watch?v=UfCV1bVOiGc - Used during both Magus fights and the battle with Queen Zeal.
Boss Battle 2 (Chrono Trigger) - http://www.youtube.com/watch?v=ShxVXnPIdqU - Used in fight with: Masa, Mune, Masa & Mune, Azala, Black Tyranno, Diva Flea, Super Slash, Ozzie the Great, Son of the Sun, Prominence, and the Rust Tyranno.
Final Battle (Chrono Trigger) - http://www.youtube.com/watch?v=nJmxeOjU ... re=related - Used during Lavos fight.
Ganondorf Fight (Ocarina of Time) - http://www.youtube.com/watch?v=P-hUyVcX ... re=related - The first part of the final battle.
Boss Bossanova (DKC2) - http://www.youtube.com/watch?v=1pORq97FPgw - This should be obvious to everybody here....