In exchange for Mukaido's life, his actions finally end their long battle with Metropoliman AKA Kanade. However, Mirai notices that Kanade has secretly been shot with a Red Arrow by someone else...Who was controlling Kanade? The MPD begins investigating the identities of the God candidates, and the situation enters the next phase. And then, a new God candidate begins to act.

God candidate and grade school student Susumu reveals information relating to the new God selection process on a live TV broadcast. As a result, people around the world begin searching for God candidates. Mirai and Saki are under a lot of stress. The whole world is looking for them, and their identities must not be discovered no matter what... but one day, on the way home from school, an MPD detective named Hoshi approaches Mirai.

With the help of Hoshi and Yumiki of the MPD, Mirai and Saki begin searching for the other God candidates. Acquaintances of the middle school-aged Nakaumi brothers have been dying one after another. Believing one of them must be a God candidate, Mirai and Saki head to the Nakaumi family home. There they witness an unexpected sight... Mirai attempts to convince the younger brother Shuji Nakaumi, but he is stubborn and not easily persuaded. Mirai is forced to face the question "what is happiness?"

Mirai, Saki, Susumu, and Nakaumi... So far, the intentions of four God candidates have been confirmed. Two candidates remain. One of them, Yuri Temari, has been captured by the police and is under house arrest. Mirai's group sets out to rescue her... Mirai's group hopes to choose the next God through a discussion between the six remaining God candidates. However, the intentions of the final unidentified God candidate are still unknown...

In order to bring the final God candidate into a discussion, Mirai and the other four God candidates reach out to them through a live TV broadcast. As the situation grows tense when Self-Defense Force attack helicopters show up, the last God candidate finally appears.

His name is Gaku Yoneda. Known as the world's smartest man, he's a Nobel Prize recipient and college professor. Yoneda's involvement causes people around the world to swell with excitement. Then Yoneda begins to explain his theory regarding God to Mirai and the other God candidates.

The first meeting of all the God candidates ends in the worst possible way, and the candidates split into two factions. The leader of one group is Mirai, while the other group is led by Yoneda, whose partner is Muni, the Angel of Destruction. Hoshi, Yoneda's former classmate, tells Mirai about an experience he had with Yoneda during school. Yoneda's character is gradually revealed, but meanwhile... Disaster strikes heaven. The time limit approaches.

Mirai's group and Yoneda secretly prepare for their upcoming showdown. When the time is ripe, Yoneda makes the first move. He uses the media to tell Mirai's group the time and location of their final showdown. Mirai and Saki spend some time alone together so they can brace themselves for what is coming. Finally, the final showdown between the God candidates begins. What is Yoneda planning...?

The new national stadium is chosen as the location for their final showdown. After describing his theory on the future of humanity, Yoneda requests a one on one conversation with Mirai. Mirai agrees, and Saki, Temari, Nakaumi, and Yumiki depart... leaving Mirai, Yoneda, and only Hoshi to observe the events. Yoneda is attempting to prevent the birth of the next God for the sake of the future he imagines for humanity. With the whole world watching, in order to defeat Yoneda, Mirai demonstrates his resolve.

Just when the White Arrow is about to strike Mirai, his partner Nasse undergoes a decisive change that impacts the course of battle. As the situation rapidly changes again and again... The long battle between the God candidates finally comes to an end.

God has been chosen and the world's memories of the God selection process has been erased. Professor Yoneda returns to his normal life with Temari as his new laboratory assistant whereas Mirai and Saki shape their future together with the intention of opening a flower shop of their own. Years eventually pass since the conclusion of the competition, and God, who has been watching all this time, comes to a conclusion.