Toru Acura is a 20-year-old retired soldier meandering through life now that the war has ended. He encounters Chaika Trabant, a 14-year-old sorceress carrying a coffin, and follows her in hopes of finding meaning to his life again. The two travel with Toru's adopted sister, Akari, the employed member of the group and thus Toru's source of income.
The search for the remains of Emperor Gaz continuous. Chaika still in search of really knowing who he really is and what is its purpose. Similarly, the Red Chaika continues the search for the rest. The Gillette corporation continues in the mission to catch Chaika. In their adventure, they give a revealing account kept secret that the Emperor, which, Chaika, Fredrika, Toru and Akari decide to discover the secret.
The Empire of Britannia has invaded Japan using giant robot weapons called Knightmare Frames. Japan is now referred to as Area 11, and its people the 11's. A Britannian who was living in Japan at the time, Lelouch, vowed to his Japanese friend Suzaku that he'd destroy Britannia. Years later, Lelouch is in high school, but regularly skips out of school to go play chess and gamble on himself. One day, he stumbles on terrorists 11's who've stolen a military secret and is caught by a member of the Britannian task force sent after them, who is Suzaku. As the rest of the squad arrives, Suzaku is shot for disobeying orders, while the military secret, a young girl, gives Lelouch the power of Geass, which makes anyone obey any order. While Suzaku is secretly made the pilot of Britannia's brand new prototype Knightmare, Lancelot, Lelouch becomes the masked Zero to lead the rebellion to destroy Britannia once and for all.
It's been one year since the failure of the Black Rebellion and the supposed death of Zero. Britannia has assigned Area 11 a "correctional education" status, where Elevens are made an example of by brute force, to try to prevent any future uprisings and suppress rebellious thoughts. Unsuspecting high school student Lelouch, oblivious to his rebellious past as Zero, stumbles upon a scheme on his life and the life of a mysterious woman known as C.C., who reveals to him his forgotten purpose and his "true" self. Destroying his assailants and declaring himself Zero once again, Lelouch sets out to finish what he started.