A gigantic ship suddenly appeared over Tokyo Bay, prompting a state of emergency. In the midst of the chaos, Nobuo Koyama, who works at a publishing company, gets caught in this uprising apocalyptic scenario.
A giant ship hovers over Tokyo for three years, seemingly bringing the world to an apocalyptic brink, yet life carries on unchanged in its ominous presence.
A smaller disc crashes in a residential area. A private company's weapon system is being deployed to prevent further crashes. Meanwhile, Kadode musters courage to visit her teacher's home.
After the Fujin-6 successfully shot down its first target, the government is accelerating the deployment of more by all means. However, there are voices that consider this questionable.
It's Christmas and the girls are celebrating together. Meanwhile, the mother ship is increasingly decoupling other smaller ships that are being shot down by the Fujin Model 7, but not every one of those shots is going well.
A look back at the elementary school days of Oran and Kadode. Oran befriends Kadode, who is bullied by the rest of the class, during a summer course, but finds it difficult to stand up for Kadode at school. Also they find a weird creature.
Kadode, an alien with advanced technology, tries to assist a stranded pregnant woman, leading to an unintentional train crash. Determined to never falter again, he vows to use his abilities responsibly.
Ai goes on a bus tour through Tokyo with an admirer. Meanwhile, the company SES continues to work on innovative weapons systems that are intended to ensure that Japan will no longer be dependent on other states.
Kadode and Oran graduate from high school and face a new chapter in their lives. Meanwhile, Japan is working hard on the construction of the Chokujin, while the existence of the invaders remains an official secret. But there is resistance.
Kadode, Oran, Ai, and Rin begin their studies and meet Futaba on campus. As various protest movements gain strength, the government finds it impossible to hide the existence of the invaders any longer after the recent incident.
Oran encounters the invader who has taken over Oba's body and decides to temporarily house him with Kadode. Meanwhile, the JSDF and other organizations begin a public hunt for the invaders after their existence is announced to the public.
With the introduction of the Fujin Model 9, it is becoming increasingly dangerous for the invaders. SHIP is growing desperate as their demonstrations fall on deaf ears and public interest wanes. The government equips Fujin models with AI.
Knowing that the world is about to end, Kadode arranges to meet with her former teacher, Watarase. Oba encounters an invader and questions them about the current situation on the mothership. The Occultism Club goes on a summer camp trip.
Futaba makes a decision regarding the task assigned to her by SHIP. Early in the morning, Ontan sneaks off somewhere, causing Oba to fear the worst. Together with Makoto, he tries to find Oran before anything worse happens.
As a massive alien vessel crumbles over Tokyo, Japan's leaders scramble to maintain control amid international pressure. Facing imminent defeat, the extraterrestrial forces contemplate a drastic final move.
As Tokyo's crisis worsens, friends debate returning to the city. The government accelerates plans to evacuate, launching a massive ark. Meanwhile, Kohiruimaki pursues his own mysterious agenda amidst the chaos.
The world is on the brink of destruction. Kadode, Oran, and their friends head back to Tokyo. Meanwhile, Oba tries to use the password to shut down the reactor of the mothership before it explodes.
We return to the world after August 32nd, where Makoto met Kadode's father. Makoto sees only one way out for Nobuo: he should restart the world once more and travel back to the point 12 years ago, to which the Shift Machine is anchored.
