Twilight Princess Bosses
- Main article: Diababa
- Main article: Fyrus
Twilit Igniter: Fyrus is the boss of the Goron Mines. A corrupted form of the Goron patriarch Darbus, he is returned to normal with no memory of his time as Fyrus when Link beats the Fused Shadow out of him.
- Main article: Morpheel
Twilit Aquatic: Morpheel is the boss of the Lakebed Temple. It is a giant sea serpent-like enemy, with rock hard scales and a gigantic body, infected by the final piece of Fused Shadow.
- Main article: Stallord
- Main article: Blizzeta
Twilit Ice Mass: Blizzeta is the boss of the Snowpeak Ruins. In the middle of the ice is Yeta, infected by the darkness of a Mirror of Twilight shard, and must be defeated to allow Yeta to return to normal and obtain the Mirror shard.
- Main article: Armogohma
- Main article: Argorok
- Main article: Zant (Boss)
Usurper King: Zant is the boss of the Palace of Twilight, and the main antagonist for much of the game. The battle itself is comprised of six stages. each taking place at an earlier boss battle location, including the Forest Temple, Goron Mines, Lakebed Temple, and more. When defeated, Midna recovers the full Fused Shadow, and the way is set for the confrontations with Ganondorf.
- Main article: Puppet Zelda
Ganon's Puppet: Zelda is Princess Zelda possessed by Ganondorf in the throne room of Hyrule Castle. Link must play Dead Man's Volley and defeat them in order to allow Midna to exorcise Ganondorf's spirit.
Dark Beast Ganon
- Main article: Ganondorf (Twilight Princess)#Dark Beast Ganon
Dark Beast: Ganon is the second phase of the Ganondorf fight in Hyrule Castle. Once driven out of Zelda, Ganondorf reforms as the giant boar Ganon. Wolf Link and Midna must join forces to defeat him in this form.
- Main article: Ganondorf (Twilight Princess)
Dark Lord: Ganondorf is the true final boss of Twilight Princess. Taking place in Hyrule Field, the fight begins on horseback with Zelda's aid, and ends in a sword duel to the death between Link and Ganondorf.
- Main article: Ook
- Main article: Dangoro
- Main article: Shadow Kargarok
- Main article: Twilit Bloat
- Main article: Deku Toad
- Main article: Skull Kid#Twilight Princess
- Main article: Death Sword
- Main article: Darkhammer
- Main article: Darknut#Twilight Princess
- Main article: Aeralfos
- Main article: Phantom Zant
- Main article: King Bulblin