Japan has collapsed after the Great Disaster. Kiruko accepts a request to take a boy named Maru to a place called Heaven. Meanwhile, children live behind the walls of a nursery in luscious green surroundings. After receiving a mysterious message, Tokio begins to doubt the world around him.

Tokio is taken to see some bizarre-looking babies, and realizes just how little he understands about his surroundings. On a boat with no escape, Maru and Kiruko suffer a terrifying attack. As all is failing, it is up to Kiruko to devise a new strategy.

Maru and Kiruko discover that Dr. Usami had a button with the same pattern as the logo they found on the Kiru-Beam. They decide to follow it's trail, and meet a mysterious informant along the way. Meanwhile, back at the nursery, an emergency meeting is held.