After the world ran out of all traditional energy sources, only one remained—human excrement. To encourage citizens to produce as much waste as possible, the government implants a chip in the anus at birth, which provides citizens with juicybars every time it detects defecation. Juicybars are highly addictive narcotics that sometimes transform their users into mutant blue dwarfs with extreme constipation. These mutant addicts make up the Diaper Gang, those who live underground and are focused on trying to obtain juicybars. Aachi and Ssipak are two small-time crooks who steal and sell juicybars to make it on the streets. When they meet a beautiful woman who has the anal chips of every Diaper Gang member implanted in her, producing dozens of juicybars with every dump, Aachi and Ssipak strike it rich. However, with both the government and the Diaper Gang on their tails, the two struggle to protect their newfound riches.

The year is 2027 in MegaTokyo, six years before the Knight Sabers will make their debut. Boomers (artificial humans) are still a relatively new advancement, and the implementation and integration of boomers into society is still a bit buggy -- sometimes fatally so. Whenever a boomer incident occurs, though, there is the Advanced Police, a special force trained to deal with boomer crimes. Leon McNichol is a rookie in the AD Police, and is just starting to become exposed to the horrors and tragedies one finds every day in MegaTokyo. He and his veteran partner, Gina Marceau, slowly learn about the ever-fading line that separates man from machine.

Somewhere in the school at noon, one might hear the sound of two girls playing table tennis together as they wait for time to pass by. As if by fate, two students—Sakura Adachi and Hougetsu Shimamura—stumble upon each other on the second floor of the school gymnasium. As they gradually foster a budding friendship, their feelings for one another only become more ambiguous. Growing closer by the day, the two must learn to navigate their contrasting personalities as well as determine the depth of their affection for each other. The nature of this relationship gradually shifts when one of them starts to develop feelings beyond the boundaries of a platonic relationship. Even so, Adachi and Shimamura must realize if forming a bond stronger than friendship will bring them closer or tear them apart.

After obtaining the Number One headband, which proclaims him to be the best of all warriors, Afro spends most of his days in peace, though his nightmare-filled nights are not so tranquil. His life crescendos into chaos once again when Jinno and Sio, his former friends from long ago, take the headband from him, as well as the remains of his father. Challenged by Sio to don the Number Two headband again and exact revenge on them for their actions, Afro embarks on another journey as the wearer of said headband—an item for which anyone would kill him. Afro Samurai: Resurrection follows Afro as he fights a second series of battles against all manner of foes, wading through the sea of corpses in his wake so that he may once again quench his never-ending thirst for revenge.