Subaru returns to the convenience store... and this time Emilia stands behind the counter! It's the situation he's been waiting for!

Before the second semester's final exams, Momo-kun's friends once again come to his house to study. In order to avoid extra classes and retaking the exams over Christmas, Momo-kun does his best to study, but he tragically ends up failing. Meanwhile, Kurihara-san, who was looking forward to Christmas, experiences her own problem... Kurihara-san becomes unable to attend the Christmas Eve party her friends planned when she gets sick. Norika secretly invites Momo-kun to Kurihara-san's house to comfort her depressed friend. Though Kurihara-san is shocked by his sudden visit, she still wants to be with Momo-kun...

During the pursuit, the 641 ignores a call from enemies in the main battleship, putting everyone on edge. Big One appears to rescue the 641 in time, only to learn that a civil war may be brewing below on planet Guerra.

Due to a mysterious drifting space seed, the Alta Line Express 637 is now stuck, and it is once again Sirius to the rescue. But while trying to reach the ship, a beam emerges. Is this the end of the crisis, or the beginning?

The Galaxy Express 999 has crash landed on a strange planet. Sirius platoon arrive to discover the reason for the crash: The shield protecting the planet has been stretched ... by mysterious hands.

The SDF Sirius Platoon engages on a mission to rescue hostages. Afterwards they begin receiving distress calls from trains near route 309. The SDF Platoon is sent to investigate the cause of these events on an unusual planet.

After the incident with Rikako Ouryou, the MWPSB is now aware of Makishima’s existence, and they try to dig up more evidence on him. Meanwhile, Kogami takes Akane to see a professor who used to give lectures to the MWPSB investigators.

Although Kogami is taken off the current murder case, he continues to investigate the case on his own. When he and Akane realize that the killer is within Oso Academy, the school the victims went to, they rush to school to capture the killer.

The CID is called in to investigate the body found under a fountain Holo, and Ginoza decides to take Kogami off the case, due to the murder’s similarity to Kogami’s subordinate’s murder. Meanwhile, the killer begins preparing their next work.

After reading Kogami’s personnel file, Akane attempts to learn more about Kogami’s past and why he ended up as an Enforcer. Meanwhile, the CID detectives attempt to figure out who was helping Kanehara commit murders in the Hachioji Drone incident.

The CID’s hunt for Kimihiko Hayama’s killer leads them to another murder with the same modus operandi. Now it’s up to the CID to figure out how to track down the killer’s real identity and get justice for the victims. 

When the CID is brought in to investigate a disappearance of Kimihiko Hayama, they discover that not only has he been killed, but someone has taken over his net avatar, Talisman. The CID tries to track down the fake Talisman in order to find the killer.

Ginoza and Akane, along with the Enforcers, are brought in to investigate a death caused by a Drone at a Drone manufacturing plant. When the Psycho-Pass of the entire staff checks out, they question whether it was an accident or possibly murder.

The series heads to a conclusion as Kogami and Makishima are locked in mortal combat, while Akane tries to stop Kogami from killing Makishima in order to save Kogami’s life and uphold the law.

Following Makishima and Kogami, the CID Division 1 detectives arrive at the facility where the Uka-no-Mitama virus is managed. Now it’s a race between Kogami and the CID to see who can get to Makishima first and stop him from releasing the modified virus.

The Dominator reveals the whole truth of the Sybil System to Akane. Knowing the truth, Akane must now decide how to proceed. Meanwhile, Kogami continues to pursue Makishima, who is making steady progress on his plan to bring down the Sybil System.

While Kogami is recuperating from Akane’s Paralyzer shot, she begins to worry about whether she is suited to be an Inspector after the fallout from her first case. On her second day on the job, she begins to learn more about the Enforcers she works with.

After escaping, Kogami visits Saiga to ask for help determining what Makishima’s next move will be. Although Division 1 is assigned to capture Makishima alive and execute Kogami, Ginoza still hopes he can get Kogami to surrender before he kills Makishima.

After Makishima’s escape, the MWPSB’s Chief assigns Division 1 to recapture him alive and orders Kogami taken off the case. However, Ginoza feels that Kogami is best able to track down Makishima, so he hatches a plan to keep Kogami on the case.