The things that go bump in the night are back for a second season – and they’re hungrier than ever! In modern day Tokyo, society lives in fear of Ghouls: mysterious creatures that look exactly like humans — yet hunger insatiably for their flesh. None of this matters to Ken Kaneki, a bookish and ordinary young man, until a dark and violent encounter turns him into the first ever Ghoul-human half breed. Trapped between two worlds, Ken must survive the violent conflicts of warring Ghoul factions, while attempting to learn more about Ghoul society, his newfound powers, and the fine line between man and monster.
As Shinohara and Kuroiwa prepare to take on the Owl, Amon insists on joining the battle. Ayato attacks Touka, and Kaneki comes to her rescue. Meanwhile, Yomo, Tsukiyama, and Uta take on Noro, but find him to be a most unexpected opponent.
With Kaneki having left Anteiku, Touka begins studying for college to distract her from everything that is happening. Meanwhile, having incurred so many casualties while fighting Aogiri, CCG gears up to completely wipe out Aogiri Tree, as well as the Owl.
A CCG prison bus is attacked by Aogiri Tree members. At Anteiku, Touka and Hinami find out that Kaneki is involved in the attack, but each react to the news in different ways, prompting Hinami to try to be less of an imposition upon Touka.
Amon and Akira visit Cochlea in order to get information about the Owl from Amon's former foster father, Donato Porpora. However, while they are there, the facility comes under attack by a large number of Aogiri Tree ghouls, led by Kaneki and Ayato!
After living together at a CCG children's home years earlier, Kurona, Nashiro, and Suzuya are reunited in combat at Cochlea. Ayato faces an uphill battle against Shinohara, who is equipped with armor created from the remnants of his own father, Arata.
Suzuya's hellish boyhood is revisited, and it is revealed how he came to work for CCG. As Touka studies for her entrance exams, Roma, a new waitress, fills in for her at Anteiku. Tempers erupt when Akira joins Amon and Seido for supper.
Tsukiyama shows up at Anteiku with news for Yoshimura about Kaneki's attempt to become a kakuja via serial ghoul cannibalism. Concerned over her "Big Brother," Hinami accompanies Tsukiyama to a coffee shop, where she again runs into Takatsuki.
During Kaneki's visit with Yoshimura, he asks for information about the Owl, and is told the tragic tale of a young ghoul named Kuzen. Touka makes plans to move out of Anteiku. A snowy day brings with it brisk business at the coffee shop.
Yoshitoki is granted permission to execute the operation to eradicate the Owl. The many CCG officers involved in the mission take time beforehand to write any last words they might have, as the 20th Ward is cordoned off and its civilians evacuated.
The battle between CCG and Anteiku continues, and Koma, Irimi, and Yoshimura each engage the special investigators. When a civilian gets caught in the middle, Hachikawa continues to press his attack unabated. Shinohara receives some unexpected advice.
Suzuya is left to face the newly-arrived one-eyed Owl on his own. Aogiri Tree joins the battle against CCG, who find themselves overwhelmed by the sheer number of opponents. Meanwhile, Kaneki confronts Amon, who stands in his way to Anteiku.