In the year 2045, after an economic disaster known as the Synchronized Global Default, rapid developments in AI propelled the world to enter a state of "Sustainable War". However, the public is not aware of the threat that AI has towards the human race. A compilation film with newly added footage.

After a global financial crisis, the world is engulfed in an AI-driven "sustainable war." It's up to Section 9 to counter new forms of cyber threats.

The Minister of Defense, who is expected to take part in a meeting has ordered an advance onsite inspection. The area must be secured and cleared from a rumoured terrorist threat.

When a ghost-infecting virus known as Fire-Starter begins spreading through the system resulting in the assassination of the Japanese Prime Minister, Major Motoko Kusanagi and her elite team of special operatives are called in to track down its source.

In the future when technological enhancements and robotics are a way of life, Major Motoko Kusanagi and Section 9 take care of the jobs that are too difficult for the police. Section 9 employs hackers, sharpshooters, detectives and cyborgs all in an effort to thwart cyber criminals and their plans to attack the innocent.

近未来，人类的各种器官均可实现移植，一时间机器人、生化人、仿生人充斥世间，与人类真假莫辨。某座繁华都市的大厦内，汉卡公司高管正与非洲来宾洽谈业务，突然宴会变成血腥大屠杀，暴走的机器人大开杀戒。隶属公安九课的米拉·基里安少佐带领巴特等手下赶往现场，平息事态。根据对暴走艺伎机器人的调查发现，被称作“久世”的神秘之人策划了这一系列的行动，而且他的目标全部指向了掌握着生化前沿尖端科技的汉卡公司及其研发人员。经过一番凶险的周旋，少佐逐渐逼近真相，同时也渐渐解开了发生在自己身上的惊天秘密……

The year is 2030 and six years have passed since a criminal known only as "The Laughing Man" swept through top medical nanotechnology firms committing acts of cyber-terrorism, kidnapping, and espionage leaving no known suspects. New information is revealed, as Section 9 enters the hunt for a suspect capable of unfathomable actions in this compilation of Stand Alone Complex content.

2045 年，世界陷入系统性的“持续战争”中，然而公众仍未意识到人类的存亡可能掌握在 AI 手里。在神秘的“新人类”出现后，全身义体化的少校草薙素子所在的公安九课作为雇佣兵登场。由于超级大国都试图把控局面，公安九课因此进行了重组。

The story takes place in the year 2034, two years after the events in Ghost in the Shell: S.A.C. 2nd GIG. Female cyborg Major Motoko Kusanagi has left Public Security Section 9, an elite counter-terrorist and anti-crime unit specializing in cyber-warfare, which has expanded to a team of 20 field operatives with Togusa acting as the field lead.