The Chronos Number assassin known as Black Cat is assigned to kill Lib Tyrant, a mobster who has been elected governor. Meanwhile, a sweeper named Sven Vollfied also pursues Tyrant for the bounty on his head.

Both Sven and Black Cat break into Torneo's mansion, each trying to get to Eve before the other. Also, Rinslet discovers Torneo's other bio-experiments.

While Sven recovers, he and Rinslet discuss what they should do with Eve. Also, Train quits Chronos, and Creed is sent to dissuade him from leaving.

Charden invites Train and his friends to San Geles City, where Creed leads the Apostles of the Star in a terrorist attack at the World Summit.

Cerberus and Train separately attack the Apostles of the Star at Creed's castle, and Sven and Eve go after Train.

The Apostles of the Star begin open warfare with Chronos. Also, Sephiria, Train, and Charden fight each other.

A sweeper alliance is formed to capture Creed, and Sven meets with the alliance. Meanwhile, Train, Eve, and Woodney look for a rich woman's pet lizard.

While looking for a route to Kraken, Train loses his way in the mountains. He is found by Saki, a mountain-dwelling woman who bears a striking resemblance to Saya, and he attempts to discover what secret she is hiding.

Chronos and the sweeper alliance each begin their assaults on Kraken, and they fight Dr. Kanzaki's minions and the Apostles' soldiers. Also, Eve fights Leon and David fights Maro.

Sephiria and Train fight Creed while Eve and Sven fight Preta Ghoul, who now has Tao powers.

Mason watches as Eve begins to merge with Eden; Train recruits a group of old allies to help save Eve; Rinslet finds Tearju Lunatique, who created the Eden Project.

Eden continues to grow in size and strength as it is attacked by an army; Leon, Kyoko, and Charden join Sven and Train's group, which forms a plan to stop Eden and save Eve.

The assault on Eden concludes.

Black Cat DVD only episode.