The story revolves around the world's most powerful weapon "Infinite Stratos (IS)", which can only be used by women. In a world where women are superior to men, the protagonist "Ichika Oribara" is able to control IS despite being a boy. For this reason, he is forced to enter the "IS Academy", a school that trains IS operators. Naturally, there are women around him, and the girls are also interested in this "only man in the world who can use IS", and thus unfolds a school life full of interesting things.