Following NERV's failed attempt to retrieve the Spears of Longinus and carry out the Human Instrumentality Project, the destruction caused by the Fourth Impact has been largely averted. In a state of disarray, Shinji Ikari, Asuka Langley Shikinami, and Rei Ayanami travel to Village 3—a survivor settlement free from Earth's ruination. There, Shinji slowly comes to terms with his past, developing an entirely different life from his days as an Evangelion pilot. Meanwhile, NERV makes preparations to continue the Instrumentality Project by means of a new Impact. When WILLE's main aerial battleship arrives at the village, Shinji decides to board, believing that he can help by piloting an Evangelion. As new secrets are uncovered and a battle between WILLE and NERV approaches, the future of Earth hangs in the balance. Can Shinji save humanity and the rest of the world one last time?

Thrown into solitary confinement after a daring rescue attempt, Jolyne Kuujou fights to uncover the sinister plot of Whitesnake, an enemy Stand whose mysterious wielder remains unknown to her. Whitesnake's user is actually Enrico Pucci, priest and chaplain of Green Dolphin Street Prison. Pucci shares a deep connection with a villain who once plagued the Joestar bloodline, making his feud with Jolyne and her father, Joutarou, a personal one. Intent on executing the master plan of his deceased friend, Pucci uses the prison and its inmates to fulfill his nefarious schemes. Assisted by fellow prisoners, like Ermes Costello and Foo Fighters, Jolyne battles several enemy Stand users. As the ramifications of Pucci's plot spread beyond the confines of the prison and begin to threaten the rest of the world, Jolyne embraces her family lineage and risks her life to put an end to evil.

Yuusuke Yotsuya has always disliked Tokyo, but he especially hates the people who live in it. He would rather thrive in a virtual world than try to get along with those around him. At the end of one school day, he sees the popular athlete Iu Shindou talking to Kusue Hakozaki, who spends less time in school due to illness. But when he looks away from the two and back again, they have seemingly disappeared. Mere moments later, Yotsuya enters a state of free-fall, and the world begins to change around him. Dropping into a large pool of water, the first thing he sees when he comes to his senses is an assortment of enormous monsters. He soon finds out that he has been brought into a game world by Shindou and Hakozaki and that he must complete a quest within 14 days. There is one thing that separates this world from the real world: anyone who dies will be brought back to life in 30 seconds as long as one party member is alive. Tasked with numerous quests that increase in difficulty over time, Yotsuya, Shindou, and Hakozaki attempt to discover the mystery behind the perplexing game world.

After one of his coworkers fails to repay a debt, apathetic bum Kaiji Itou is pressured by loan sharks to settle the large sum of cash. Since Kaiji has little money and no future prospects of his own, he is unable to return what his colleague borrowed. Faced with massive financial burdens, Kaiji is given an offer to board the illustrious Espoir—it is said that one night aboard the ship, and all of your debts will be paid. What seems like a simple night of gambling quickly turns into a game of strategy and betrayal. With the losers of the tournament being subjected to a backbreaking life of indebted servitude, Kaiji must choose his actions—and allies—carefully. However, this is only the beginning of a series of gambles that will wager Kaiji's life, testing the full extent of his wits and will to survive.