Thousands of years ago, the evil emperor Talpa attempted to conquer the Earth. Defeated, he was banished to the Nether Realm and his armor was divided into 9 separate suits. Now, he has returned to conquer Earth, having reclaimed 4 of the suits. The other 5 are in the possesion of those who are the only hope of stopping him: The Ronin Warriors.

A comet burns in the sky, its brilliant light shining down upon the people of Earth. At that time, a giant army of viruses invade the real world, crushing everything in their path. Netto and Enzan use cross fusion to intervene, but are whisked away to an unknown location, only to be confronted by the one responsible for the attack - Duo!

Eris is the goddess of chaos and uses the body of Elien, who is a friend of Hyoga, to revive herself. She obtains the golden apple to drain Athena's life energy to make her ressurection complete and to be able to turn the world in a place filled with chaos. But to be able to attack Eris, Seiya and his friends will first have to defeat the Ghost Knights.

Lucifer has been awoken from his eternal slumber by the spirits of Eris, Abel and Poseidon. He has come to kill Athena and fulfill his heart's burning desire: becoming the strongest of all the gods.