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.

Five years ago, in Asakusa, Robin, Haruki and his racer sister Kiriko had spent their days happily living in an orphanage.

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.