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 find what they believe is the doctor and the Immortal Order. Instead, it is a hostile organization that is strongly opposed to the treatment that the Immortal Order provides.

Maru and Kiruko decide to head to the Ibaraki facility of the Takahara Academy. Since it's on the way, they agree to help Juichi confirm whether his baby is still alive. Arriving at the Walled Town, the situation is very different to what was expected.