The Tachikomas and the Major continue to investigate Gohda and his motives, while the rest of Section 9 are out to stop a string of suicide bombings.
The CIA arrives in Japan with a request to help them hunt down a serial killer. The killer, a former CIA operative, has recently gone rogue and has turned up in Japan. He is an especially brutal killer, preferring to skin his victims alive in the pattern of a T-shirt. This sparks an odd reaction in Batou, and his normally laid-back demeanor is replaced with one of furious determination. What is the link between Batou and this man?
Togusa goes undercover at a hospital for patients with Closed Cyberbrain Syndrome, a hospital completely cut off from communication with the outside world. Disguised as a staff worker, he learns that the patients' unique conditions make them exceptional at programming and hacking defense barrier programs.
One of the Tachikomas decides to take a little stroll through the city. It meets a little girl, Miki, who is searching for her lost dog and it agrees to help her. On their journey, the Tachikoma finds a strange box. After the adventure with Miki is over and the Tachikoma returns home, the members of Section 9 discover the box, and find that within it is a movie theater that contains the Ghosts of all those who saw the movie. Will Motoko be the next victim?
In a briefing, Aramaki shows a photo of a girl who looks like Eka Tokura, the daughter of Tokura Electronics, who was kidnapped 16 years ago. But there's one problem--the photo was taken two days ago! When a team of special operatives was sent in, all contact was lost. Section 9 is assigned to go in and determine what's really going on.
The Chinese government contacts Section 9 to let them know that an assassin may have entered Japan to kill a famous reclusive millionaire. Despite their considerable efforts, however, Section 9 is unable to contact him to warn him, so they go directly to his residence. Unfortunately, a female cyborg assassin named Fem has arrived first. Now it's a showdown between the Major and Fem, and a man's life hangs in the balance.
Plans have been leaked to terrorists that the plutonium recovered from the underground nuclear facility in Tokyo is to be moved. Section 9 is called in to ensure the plutonium reaches its destination, and Gohda is there again.
While on a stakeout of a Taiwanese vegetarian restaurant, Section 9 finds out that someone is pulling strings and feeding misinformation to the Public Safety Sections.
Togusa is brought up on charges after he becomes involved with a murder while off duty. But during the course of the trial, it becomes clear that who the attorney is really after is not Togusa, but all of Section 9!
While field testing new recruits, the Major finds herself hacked, and an old woman tells her a story from her past.
Watch more Ghost in the Shell on [adult swim].
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