The young girl Clara visits her Aunt Gerda and Uncle Drosselmeyer. Her aunt tells her scary stories about the Ragman, a creepy and mysterious man who turns children into mice if they don't go to bed on time. The Ragman is always spying on sleeping children searching for more victims. Just before Clara goes to bed her eccentric uncle gives her a wooden nutcracker doll. He's a bit embarrassed because the only part on the doll that's perfect is the heart, but Clara loves her new doll. She falls asleep but wakes up hearing mice squeaking...

We are now in the early 18th century, the Kyouhou era, when the merchant culture was flourishing. In Yoshiwara, the red light district of Edo, there is a popular courtesan with good looks and character, called Usugumo. She in fact is a daughter of a Christianized prostitute and Tokugawa Yoshimune (who was a real historical character and the 8th Shogun of Japan), but the power struggle in these times doesn't allow her to be with her father. Her fate is about to change when she meets the blond haired thief, Kikunosuke. With Kikunosuke, a doctor named Aoto Touichirou, who uses the yet unfamiliar Western medicine, and her pet cat, Kotetsu, Usugumo forms a thief group, the Kikugumi. In the meanwhile, a member of a mysterious group appears, aiming for Usugumo...

Goro Kumagaya is an established, tall middle-school goalkeeper who wanted to enter Yokonan high-school that is considered to be among the elites in terms of its football club, only to fail and end up in the lowly-ranked school opposite to Yokonan because of an accident. However, he met Shingo, Hideki and Kazuhito Oda who are all skillful footballers there and together in the Kawasaki High School football club, they challenge Yokonan and any other schools that they have to face in order to improve and become the champions. Any setbacks that they face would instead be an opportunity for a better improvement; one of which was the discovery of Goro's natural talent as an ace striker.

Compilation of Mawaru Penguindrum, including new scenes.