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Hanasaki left Kobayashi behind and took off for Twenty Faces' hideout alone, planning to put an end to everything. But Kobayashi can't accept that, so he follows him... even though the aura surrounding him has already disappeared.
The Boy Detectives' Club arrives at the Space Expo. Hanasaki and Kobayashi board the shuttle for Twenty Faces' base, where Akechi is being held captive, but things don't go as planned.
Akechi, stunned to learn that Nakamura was brainwashed by Twenty Faces, ends up captured by the special security force. Meanwhile, at the New Tokyo World Fair, the plane built to carry people to the stratosphere is involved in a catastrophic crash.
Miyanishi was shot to death by Nakamura. During her interrogation, Nakamura testifies that Twenty Faces is actually Akechi. Determining that she may have been under his control, the police conduct a search of the Akechi Investigation Firm office.
Kobayashi, along with Inoue, searches for the place that he saw in his dream. Hanasaki and Hide-chan then show up and offer to help. Shortly after, Kobayashi has a flashback after seeing gingko trees lining their path, then takes off running toward an abandoned building. Meanwhile, the police catch Akechi on the security cameras breaking the fake Twenty Faces out of prison. The police suspect Akechi is the real Twenty Faces, but Miyanishi disagrees and sets out to find the truth alone.
As he's resting to recover from his gunshot wound, Kobayashi has an odd dream in which he sees a woman in a bed and a man approaching her. He doesn't recognize them, but the dream gives him a strange headache.
Inoue and the other detectives are disheartened after being told that the Boy Detectives' Club would be disbanded. The strange air around Kobayashi has returned and is working hard to heal his wound.
Kobayashi is in extreme pain after being shot. Has the mysterious power that protected him disappeared?
To escape the enemies targeting Fukiya, the death row prisoner they're guarding, the Boy Detectives' Club takes refuge in the abandoned building that Kobayashi had once been using as his base.
After being out of touch for so long, Akechi calls the office. Kobayashi complains to him that Hanasaki is acting weird, and Akechi tells him, "do to him what he did to you."
Yamane Tasuku, a member of the Scientific Experiments Club, is troubled by three things: Ohtomo picks on him, he's always left behind in conversations, and most troubling of all is that he doesn't know how to become a member of the Boy Detectives' Club.
With the Le Waqua incident resolved and Twenty Faces in custody, the world appeared to be at peace again. However, the trauma of the incident left Hanasaki psychologically unstable, and the Boy Detectives' Club is reluctant to let him return to the ranks.
Even with a gun pointed at him, Hanasaki is brought to tears by the conversation between Twenty Faces and Akechi. Then the Boy Detectives' Club arrives on the scene.
Hanasaki's act is successful in convincing Akechi and the Boy Detectives' Club that he was kidnapped by Twenty Faces. Akechi takes off to try to save him, saying he has an idea where Hanasaki might be.
Hanasaki runs out of the office after an argument with Akechi and the others, only to end up confined by Twenty Faces and shown several video clips that cut deeply into Hanasaki's psyche.
Isuzu is negotiating with the police for three billion yen in exchange for the removal of the residents of the housing complex. Nakamura requests the aid of Akechi and the Boy Detectives' Club in the case.
The residents of the Kokorogaoka Housing Complex refuse to vacate their homes for the sake of urban development, so they declare its independence from Japan as an autonomous borough. The one to make this announcement is none other than Hanasaki's brother.
Akechi is relaxing at a spa to relieve the exhaustion of his recent cases. Nakamura asks him about his history with Twenty Faces, and Akechi begins to recount the trauma of his youth.
Hanasaki has been trying to help Kobayashi die, but nothing has worked. While Akechi is away, Hanasaki takes the liberty of accepting six job requests.
Kobayashi and Inoue are trapped in the underground channels as a result of Twenty Faces' maneuvering. Worried about the officers searching elsewhere in the channels, Inoue tells Kobayashi to escape and warn them that the map they were given is fake.
After school, Inoue watches Katsuta's tennis club practice before heading home, and Hanasaki tests out some tools of the Boy Detectives' Club trade. Meanwhile, a police car is found overturned after a crash.
Kobayashi somehow feels that maybe he can die if he stays with Hanasaki, so he joins the Boy Detectives' Club. His first mission is to help find a jobless young man who's gone missing.
A young woman approaches the Boy Detectives' Club and asks them to find the intended recipient of a series of threat letters her boyfriend made. They accept the job and begin to tail her boyfriend.
In the year 203X, a security robot goes on a rampage in Shibuya. Nakamura Nao, a police detective, commissions detective Akechi Kogorou to solve the case, but Akechi, along with Inoue Ryou, is already heading toward the robot's manufacturer.