Apprentice engineer Link is ready to travel to Hyrule Castle and receive his engineer's license. During the ceremony, Zelda slips Link a note warning him not to trust the Chancellor and to help her reach the Spirit Tower. The land's Spirit Tracks, mystical railway tracks that cover the land, have been disappearing and she suspects that the Chancellor is the cause. While heading to the Tower, the Chancellor intercepts them and proves Zelda's suspicions right: he casts a magic spell on her, splitting her body from her soul. Link and Zelda must work together to return Zelda to normal and save Hyrule once again.