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.

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.

After killing the Man-Eaters, Maru and Kiruko finally meet Dr. Usami. He asks something difficult of them, and leads them both to a room where a horrifying scene awaits.

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.

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.