Ken Kaneki is a bookworm college student who meets a girl names Rize at a cafe he frequents. They're the same age and have the same interests, so they quickly become close. Little does Kaneki know that Rize is a ghoul – a kind of monster that lives by hunting and devouring human flesh. When part of her special organ – "the red child" – is transplanted into Kaneki, he becomes a ghoul himself, trapped in a warped world where humans are not the top of the food chain.
CCG locates Aogiri Tree's headquarters. Hinami's execution is scheduled. Takatsuki's editor is questioned over whether or not she is a ghoul. Before Takatsuki can be questioned, however, she makes a stunning public announcement.
Ayato leads a raiding party on Cochlea to rescue Hinami, He is joined by Touka and Yomo. Haise tries to get Hinami to safety, but is confronted by Furuta. As the others flee through the basement, Haise confronts Arima.
CCG's assault on Aogiri Tree on Rushima Island continues, and Urie and Saiko are anxious to rescue Mutsuki. Tatara and Kurona both make their stands against the investigators. Akira receives help from a surprise source.
As the fighting on Rushima reaches its climax, Akira makes a fateful decision. Urie, together with the new members of the Quinx Squad, continue their search for Mutsuki. Arima makes a startling revelation to Kaneki.
Kaneki assembles the remaining Aogiri Tree and Anteiku members to announce the creation of a new ghoul organization. Akira's course of treatment takes a surprise turn. Yomo and Touka both try to make peace with their past.
The CCG investigators that were close to Haise react to his leaving. Furuta takes over as the head of the CCG, and sets forth a new strategy to deal with the ghouls. The Clowns begin to riot, threatening CCG Headquarters.
Under Furuta, CCG cracks down hard on the ghoul community, forcing Goat to go underground. Takeomi and Yoriko set a wedding date. Mutsuki locates Kaneki and invites him back. Touka takes the next step with Kaneki.
Mutsuki leads the Oggais in a raid on Goat's underground lair. Urie and Kuroiwa confront Furuta in his office over his fitness to lead. Kaneki and Suzuya face each other in combat. Kaneki goes to drastic lengths to protect Touka.
As Dr. Kanou visits his family's gravesite, Kurona confronts him. CCG gains a new ally and expert on ghouls. Hide enlists the help of Akira and Amon to plead his case to CCG. A despondent Mutsuki lashes out at Saiko and Urie.
While Kaneki's body lies dormant in its giant kagune, he has an inner dialogue with Rize. Urie talks to Mutsuki about the hardships of going it alone. A crisis places the city on alert, forcing CCG and the ghouls to work together.
Following increasing dragon activity and the discovery of a second core, Kaneki and Ayato volunteer to go and deal with it. When Kaiko and the members of V launch an attack, CCG and the ghouls must fight together to stop them.
Kaneki and Furuta continue their duel below the streets of Tokyo, as CCG and Goat jointly continue fighting the members of V aboveground. Kaneki comes to terms with the events of the last several years.