The Triforce calls out to Link from within Hyrule Castle. Link approaches it, and is transported to a dark forest where he encounters a traveling group led by a dancer named Din. After Din welcomes Link to Holodrum, the sky becomes covered in black clouds. A voice from the clouds calls Din the Oracle of Seasons and refers to himself as Onox, General of Darkness. A funnel cloud drops from the sky, taking Din into its dark heights. Onox seals Din in a crystal and sinks the Temple of Seasons into the subterranean land of Subrosia, sending the seasons of Holodrum into disarray and causing them to change rapidly.

Din's attendant, Impa, tells Link that they were headed for Hyrule; she instructs him to see the Maku Tree in Horon Village, the capital of Holodrum. Link finds a sword in a cave and makes his way to the tree. The Maku Tree tells Link he will need the eight Essences of Nature and gives him the Gnarled Key, which unlocks the dungeon holding the first Essence. Link retrieves the eight Essences from eight dungeons throughout Holodrum and Subrosia and brings them to the Maku Tree, who uses them to create a Huge Maku Seed, a sacred evil-cleansing seed that allows Link to enter Onox's castle. Link enters the castle, defeats Onox, and rescues Din, who tells him that he is now a true hero and must face a new trial soon. Twinrova, watching the scene remotely, states that the Flame of Destruction has been powered by the havoc Onox has wrought.