In the year 2029, Niihama City has become a technologically advanced metropolis. Due to great improvements in cybernetics, its citizens are able to replace their limbs with robotic parts. The world is now more interconnected than ever before, and the city's Public Security Section 9 is responsible for combating corruption, terrorism, and other dangerous threats following this shift toward globalization. The strong-willed Major Motoko Kusanagi of Section 9 spearheads a case involving a mysterious hacker known only as the Puppet Master, who leaves a trail of victims stripped of their memories. Like many in this futuristic world, the Puppet Master's body is almost entirely robotic, giving them incredible power. As Motoko and her subordinates follow the enigmatic criminal's trail, other parties—including Section 6—start to get involved, forcing her to confront the extremely complicated nature of the case. Pondering about various philosophical questions, such as her own life's meaning, Motoko soon realizes that the one who will provide these answers is none other than the Puppet Master themself.

The death of Sheena Totsuki's roommate is casually announced at the start of class, and the day carries on as usual. In an orphanage that raises children as soldiers, death is nothing new to the residents. With their home country embroiled in a war that has dragged on for too many years and shows no signs of stopping, the institution's children are sent off to die in battle every day. In contrast to the other orphans, Sheena is deeply disturbed by the ongoing conflict and wishes for it to end. On the night of her roommate's death, Sheena met a blood-covered girl who remained jubilant despite the condition she was in. The next day, the girl appears as a new student in Sheena's class and introduces herself as Mimi Kagari. Initially thought to be a school myth, Mimi is said to be the secret weapon of the orphanage—a girl who cannot die. Assigned as Sheena's new roommate, Mimi hopes to get along with her and get accustomed to school life. However, unsettled by Mimi's carefree attitude toward the war, Sheena struggles to accept the world they live in, all while their unusual friendship flourishes amid the bleak situation.

The Royal Diana Academy is a prestigious school that accepts individuals with adept magical abilities. Upon graduation, these students find themselves at the top of their field or employed by the royal family. Spica Virgo dreams of studying at the academy, aiming to be a top-rate sorceress like her idol Claude Sirius. Claude is a world-renowned sorcerer who became the institution's youngest instructor, but mysteriously disappeared soon after. Lacking the experience and connections required for admission, Spica finds herself unable to make meaningful progress with her training. One day, however, she meets a talking black cat with magical abilities. Hoping to change the situation for the better, she begs the animal to take her as his apprentice and teach her the magic she needs to attend the academy. The cat accepts the deal on one condition—she must find a way to reverse his feline curse. Despite the arduous challenges ahead of her, Spica is determined to prove herself as a student worthy of the cat's mentorship.

Second season of Kabushikigaisha Magi-Lumière.