12-year-old Misaki Suzuhara has just gotten involved in Angelic Layer, a battling game using electronic dolls called angels. Even as a newbie, Misaki shows advanced skills as she meets new friends and enters Angelic Layer tournaments to fight the greatest Angelic Layer champions of the nation.

Akari Mamiya, a first-year student from Tokyo Butei High, idolizes the S-rank Butei Aria Holmes Kanzaki and wishes to follow in her footsteps. Despite only being an inept E-rank Butei, Akari's resolve to improve remains strong. After the idea of having an Amica contract (a senior-student mentorship program) with Aria is brought up, Akari submits a request form attempting to establish said contract. Her classmates and friends do not expect Aria to accept Akari's request, mainly because of the girl's strict selection process, but to everyone's surprise, Aria gives Akari a chance through a test, which Akari miraculously passes! However, Aria will not officially make Akari her Amica until Akari meets her standards. Training under Aria will be no easy feat, as she has to concurrently manage her relationships with her friends. Will Akari have what it takes to walk down the same path as her idol?

In response to the worsening crime rate, Japan creates Tokyo Butei High, an elite academy where "Butei" or armed detectives hone their deadly skills in hopes of becoming mercenary-like agents of justice. One particular Butei is Kinji Tooyama, an anti-social and curt sophomore dropout who was once a student of the combat-centric Assault Division. Kinji now lives a life of leisure studying logistics in order to cover up his powerful but embarrassing special ability. However, his peaceful days soon come to an end when he becomes the target of the infamous "Butei Killer," and runs into an emotional hurricane and outspoken prodigy of the highest rank, Aria Holmes Kanzaki, who saves Kinji's life and demands that he become her partner after seeing what he is truly capable of.

A long time ago, the ancient saviors of humanity founded a village as their haven, with their descendants said to assist humanity in times of extreme chaos. This village, Kunlun, is located just beside the infamous "Last Dungeon"—a place where monsters of unimaginable strength reside and which serves as the hunting grounds for Kunlun residents. Despite being accustomed to defeating powerful enemies since childhood, Lloyd Belladonna regards himself as the weakest in his village in terms of magic, strength, and intelligence. Even so, to fulfill his desire of becoming a soldier, he goes to the Kingdom of Azami to enroll in its military academy. However, as someone whose upbringing defies common sense, Lloyd's innate power might just prove to be the key to end the crises enveloping the kingdom! [Written by MAL Rewrite]