In 2029, the future world is a world of high technology and information. The improvement of human living standards is accompanied by the high-tech nature of criminal activities. Therefore, a special force dedicated to suppressing high-tech crimes, Public Security Section 9, was established. Captain Kusanagi Motoko, as a female police officer with a "cyborg" body, leads Public Security Section 9 to continuously carry out operations. This time, Public Security Section 9 helped Public Security Section 6 secretly solve the troublesome trivialities of a programmer fleeing to another country, and was involved in the crime of the legendary hacker "Puppet Master". When the operation reached a deadlock, the Puppet Master unexpectedly showed up in Public Security Section 9 uninvited! Motoko and her comrades were unknowingly involved in a conspiracy involving the government.