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 return to Tokyo to find a neighborhood crowded with tents. When Maru goes off to a game center, Kiruko is left to gather information for herself, and hears a scary rumor.

Maru and Kiruko are on the hunt for the Immortal Order. On the way, they stay at a hotel run by a girl named Totori. Dumping their bags and searching for safe drinking water, they stumble upon a badly injured man.

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 head to the Ibaraki facility after Juichi gives them his car. Meanwhile, a group of new 5th years join the academy. Mimihime notices that one child called Ohma seems very lonely, and tries to make friends. But Ohma has special reasons for keeping away from the other children.

Maru and Kiruko arrive in a prosperous marketplace. It's the town where the rumored Ministry of Reconstruction runs things. Meanwhile, the academy is suddenly under attack. While trying to take shelter, the children find a hole in the wall.

Mimihime, Shiro, Anzu and Taka all head outside through a hole in the wall, as they search for an answer to their teacher's test. Meanwhile, Kiruko is in tears after Robin does something terrible.