Siamo nel 2027, un anno dopo la fine della IV Guerra Mondiale. Il tenente colonnello Mamuro è stato ucciso, probabilmente durante un tentativo di rapina. Ma Daisuke Aramaki, ufficiale della Pubblica Sicurezza è assolutamente certo che dietro questo delitto si nasconda ben altro. Aramaki incarica delle indagini la giovane Motoko Kusanagi, maggiore in seconda dell’esercito nonché cyborg potenziato ed abilissima hacker.

Motoko returns from a mission abroad to discover that her commanding officer has been murdered--and no one but Aramaki seems interested in doing anything about it.

The further Motoko investigates her CO's death, the less sense it makes.

After a war hero is convicted of war crimes, he and his former unit hold the entire city hostage. Their demand: access to the state secrets in the Pandora database.

Time is running out to stop Pandora's box from opening.

Motoko's love life is going better than it ever has, and she's even managed to take an unprecedented 5-hour vacation. Naturally, that's when buildings start blowing up.

The terrorist attacks on Newport City continue, and the shell squad isn't making much progress against them. Can Motoko accept help from a man made out of plain old flesh and blood?

Motoko and her squad are finally getting closer to Fire-Starter's broker, but things get tense when they're instructed to take a backseat role on a sting op.

Motoko and the gang have caught their man--or have they?