Things look brighter for Dr. Tenma, now that Dr. Heinemann is dead. His career takes off, and even Eva tries to win him back. But unfortunately, all that success has drawn the attention of Detective Lunge.

Adolf Junkers has information about the serial murders that is vital to the police, but he is afraid to reveal them. Dr. Tenma's care for Adolf Junkers however wins him over. His close relationship with Junkers however leads him to a night of shocking horror.

Tenma and Nina return to the Fortners’ residence to find Mauler and Nina’s parents dead. Two detectives arrive to take them to the station for questioning, but certain things don't look right.

Eva tries to threaten Dr. Tenma, unless he gets back with her, she would reveal to the police that the tie that was found at the scene of the crime is his!

An old mercenary soldier named Hugo is interrogated by Lunge about a student of his, a doctor named Tenma.

Inspector Lunge investigates the murder of a prostitute and suspects a senator named Dr. Boltzmann of involvement. His dedication to his work however takes a toll on his family life. Meanwhile, the vindictive Eva continues to press Lunge to catch Tenma. She also has a new lover, her gardener.

Lunge determines that the murder of a wealthy, middle-aged, childless couple does not fit the usual modus operandi of the serial murders and decides to use this opportunity to lure Tenma to a trap. However, before he can arrest him, Lunge is critically wounded by the real criminal. Tenma is able to treat Lunge's injuries.

Dr. Tenma and Dr. Reichwen finally meet. Dr. Reichwen intends to proof Dr. Tenma's innocence in the homicides, but Dr. Tenma has other ideas.

Lunge tries to get into Dr. Tenma's mind by pretending to be him. Dr. Gillen learns something about Johan during an interview with a psychotic killer. Dr. Reichwen tries to warn the Lieberts of Johan's true nature. Dr. Tenma scouts for a perfect sniping location.

Dr. Reichwein reveals the true nature of Johan to Mr. Schuwald. Dr. Tenma gets ready to assassinate Johan. Lunge concludes that Dr. Tenma will kill Schuwald next. Lotte confronts Nina about Johan.

Lunge, from the BKA, learns that Johan may indeed exist. Nina goes into regressive hypnosis to learn more about the picture book and her past. Mr. Schuwald has a message for Dr. Tenma and sends Karl to Dresden to pass it to him.

Johan visits Suk's mother. Tenma and Grimmer learns of his visit. They, including Col. Ranke, listen to Johan's tape. Lunge arrives in Prague for a 'holiday'. His investigation leads him to the sketches of Franz Bonaparta.

Grimmer and Tenma tries to stop Johan from subjecting Milo, one of the orphans, to one of the most cruel fate.

Lunge investigates the secret behind the Red Rose Mansion. Tenma and Grimmer separate, but Tenma finds himself in trouble.

Schubert, with the help of Reichwein, re-explores his past with Karl Neumann's real mother and realizes his link to Johan. As news of Tenma's arrest spreads, various people react with shock and horror, with the exception of Eva Heinemann, who is insistent that Tenma pay dearly for rejecting her. Suk tries to leave the hospital he is in to try to help Tenma, but is stopped by the Prague Police who inform him that Grimmer has sent a note to them exonerating Suk from any involvement of the deaths of the police officers. Runge also gets news of the arrest as well, but he is more interested in the Mansion of Red Roses, where he obtains a letter possibly addressed to the twins' mother. Tenma is deported back to Dusseldorf.

Dr. Tenma takes Verderman hostage in a desperate search for Eva. And Verderman's dark past is revealed.

A flashback to Johan’s and Nina’s past, to the time before the Liebert’s homicides reveals the reason behind Johan’s killing. Police makes a startling discovery at the burnt down mansion. Tenma finally learns where Eva is. And Lunge reveals Lipsky’s true identity.

Nina confronts Johan who presents her with a story on what happened when many people were poisoned at the Mansion of Red Roses. Nina realizes that she was the one who witnessed these deaths, the shock of this revelation nearly drives her to suicide, but she is saved by Tenma. Capek is gunned down by members of his organization when they find out about the guard that Capek killed.

Lunge and Grimmer conclude something terrible is happening in Ruhenheim when random gunshots ring out, people are either murdered or disappearing, and any links out of town is flooded by torrential rain. As Nina recovers in a nearby hospital, Tenma, using a lead from Capek, travels to Prague and meets with Lipsky and determines that Johan is in Ruhenheim.

As time passes, more people in Ruhenheim are being shot dead by mysterious people and each other. Both Grimmer and Lunge determine that the owner of a local hotel is Klaus Poppe, also known as Franz Bonaparta. After subduing a man who was giving weapons to everyone in the town, they obtain information that one of the ringleaders is in a second hotel.

Tenma runs into Lunge, the latter apologizing for his previous accusations against Tenma. Nina and Dr. Gillen rush to Ruhenheim. After the winning lottery couple is wounded in an attack on Bonaparta's hotel, Grimmer rushes out to the streets to reason with the unknown assailants.

Lunge confronts Roberto, one of the ringleaders, in a hotel room. Both are subsequently wounded in the fight. Nina and Gillen arrive in Ruhenheim where they find a house containing drawings of the two twins by Bonaparta. This triggers a final memory and the secret to Johan's madness and motives, his quest for true solitude, as well as forgiveness for his actions. Bonaparta accompanies Tenma on his quest to find and kill Johan.

Bonaparta attempts to shoot Johan dead, but is gunned down by Roberto, who dies of his own injuries soon afterwards. With the massacre now over, authorities rush into the town and attempt to determine what happened. Just as an officer is about to arrest Dr. Tenma, an ambulance worker arrives asking for Tenma's assistance.

It has been some time since the tragic blood battle, and everyone is working hard to put their lives back to normal. Tenma finally locates a woman he has been searching for, and she reveals some startling information.