In a dystopian future where music is deemed illegal, AKB0048, successors to the idol group AKB48, rebel against the government to bring music to people's hearts. In the year 0048, three thirteen year old girls, Nagisa Motomiya, Orine Aida and Yuuka Ichijō, decide to audition to become members of AKB, although Nagisa has trouble singing due to the restrictions placed upon her by her father. As the girls hear they've passed the first round of auditions, Nagisa becomes downhearted as she wouldn't be allowed to go. However, after hearing about Yuuka's and Orine's reasons for wanting to join AKB, Nagisa decides to join Yuuka and Orine and head off to the auditions.

As Tsubasa recalls some things Atsuko taught her, the understudies, along with the successors, request that they resume the concert. Just then, everyone hears the voice of Atsuko, whose light brings the concert to the detention center. As Chieri offers Nagisa the chance to sing, she gets her voice back upon seeing her family support her and Chieri's Kirara splits in two. The understudies' group performance soon begins, with everyone bathed in a radiant glow as they perform. As Minami fights to protect the understudies from the DES, the Kirara in the holy grounds choose her as Takamina's successor once more, whilst Sensei-Sensei prophesises that one of the understudies will become the next Center Nova. The camerawoman, who was the former successor of Minami Minegishi, predicted that if they glowed brighter, they would disappear. But didn't at the last minute, she falls on her feet, wondering about the Center Nova.