Koto falls into the Looking Glass City, a place that is and isn't Kyoto, in search of the black rabbit. She faces liquid crystal pursuers and strange monsters, but with the help of her massive hammer Aratama, she fends them off and turns every day into a big party.

Chapter 1: Priest Myoue and his wife, Koto, and three children, live in Enzanji temple in Kyoto. The people around them find them creepy, so they decide to move to the Looking Glass City. Chapter 2: The family is happy, but Koto has a dream where disaster strikes the city, so the parents leave their children behind.

Chapter 3: With the parents gone, the children are left to run the city for themselves. One day, a girl called Koto appears.

Inari asks Koto why he exists, and tells her to live because he's going to disappear. Myoue and Koto use the prayer beads to try and restore the city, but are sent to heaven where they meet God and are told to become the new masters of the Looking Glass City. Koto confronts Inari in the Holy Grounds to find his true intentions and the answer to everything.