Mikan Sakura is a normal 10-year-old girl. Optimistic, energetic, and overall a very sweet child, Mikan is the complete opposite of the aloof, intelligent, and somewhat cold-hearted, Hotaru Imai. Despite their glaring differences, the two girls have been best friends for a very long time. So when Hotaru suddenly transfers to Alice Academy, a prestigious school in the city, her best friend is devastated—especially when she hears of the horrible rumors regarding the academy's harsh treatment of students. Beset with worry, Mikan runs away to see her best friend! Upon her arrival, Mikan learns of "Alices," individuals gifted with various supernatural abilities, and that the school is an institution built by the government to train and protect them. Discovering that she has her own unique powers, Mikan enrolls in the academy, and, after a lot of trouble, finally reunites with Hotaru.

Four former classmates share an apartment in Daikanyama, Tokyo and pursue their own happiness. Arisugawa Fuu works for a design production company and spends most of her salary on fashion, Hada Mizuhois a budding manga artist, Sakuragawa Rio practices psychosomatic medicine, and Enjoji Sayuri works for a Ginza art gallery.

A mother hunts down the killer of her son only discover that the reality is far more horrifying than anything she could have ever have believed.

When Alice Hayashi, the youngest person ever to go into space crashes her shuttle at the North Pole, she is thrown thirty years into the future. But her trip through time is far from accidental. The world is now ruled with an iron fist by Nero and his supercomputer, the SS10X. And because of a common link between her, Nero and the SS10X, Alice may be the future's only chance for freedom....

The far future, when humanity is forced to flee Earth after an attack from mechanical lifeforms known as Weiss. These beings can be combated by Actresses: young women adept at using high-dimensional weapons known as Alice Gear. Under the supervision of AEGiS, private companies of Actresses head out into the universe to exterminate Weiss and save the human race from being doomed to wander the universe forever.