The tables seem to be turning in favor of section 9, but the nuclear missile is still being prepared for launch. The Tachikomas take control of the AI satellite, and take out the nuclear missile.
The Laughing Man returns! And, just as he did six years ago, he kidnaps the president of Serano Genomics without being detected. Section 9 arrives at Serano's house too late, and sets out to find him. The Laughing Man and Mr. Serano discuss what happened six years ago, and why Mr. Serano hasn't fulfilled his promise. This time, however, things are going to be different, with or without Serano's help.
The government orders Section 9 disbanded. Aramaki is taken away, and Togusa is arrested. Motoko assembles the remaining team members at HQ for one final mission. They prepare for a full-scale assault while Elite troopers and Armed Suits descend on Section 9 HQ.
Despite their best efforts, the remaining members of Section 9 are rounded up one by one by the government forces. Only Batou and Motoko are left. Batou goes to Motoko's apartment, even though he's sure its under surveillance. Once inside, he is attacked by the troops, but discovers Motoko's secret weapons cache and manages to fight back. But when the Armed Suit shows up, things start to go badly.
Togusa has been released from jail. But his badge and gun are confiscated, and he's given papers showing the dissolution of Section 9. Out of work and depressed, he tries to find information on the others, but there is nothing available. Thinking that he has nothing left to lose, he goes to assassinate the man responsible when he is stopped by--Batou! It seems that Section 9 is still alive and well after all, but what about the Major?
A group of terrorists identifying themselves as the "Individual Eleven" barricade themselves within the Chinese Embassy. Section 9 is called in to eliminate the terrorists without any civilian casualties, all before the scheduled police raid.
This episode focuses on the life of a refugee living in Japan. He has plans to "reset the world" and change things. But are his plans merely violent daydreams, or something more sinister?
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.
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].
After tracking down the designer of Kuze's face, it is discovered that he was already killed... by Paz.
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