In the distant future, because of an interplanetary war that had continued on for centuries, civilizations were ruined. Human beings have lost everything, and only 1/5th of the population survived. A strange breed of humans, ''The Third'' is said to have appeared just after the war. They possess a third eye, as their name suggests, that appear as oval-shaped red pupils called "space eyes'' over their conventional two eyes. Using them, they can control computer systems and so on, and as such, rule the world by their superior power over technology. In this world, there is a young woman named Honoka; she is a "jack-of-all-trades" sellsword, and she accepts any job except murder. One day, she happens to find and rescue a young man named Ikus in the desert. Entering his world, and accepting a job from him, the adventure begins for Honoka and Ikus.

Five supernatural factions have been fighting against each other for who knows how many centuries, with the beginning of Aquarian Age always in mind. Kyouta, soon begins to see visions of mystical girls fighting, except they do exist. Soon he and his girlfriend Yoriko become involved and the battle for Earth and Aquarian Age lies in their hands.

A series of natural disasters has reduced the world to rubble, with the survivors doing whatever they must to survive in a world gone mad. But one young boy, Kakugo, gifted with amazing martial arts and a superpowerful suit of armor by his late father, has been charged with making the world (or at least his school) a safer place. But his sister has a matching set of skills and equipment, and she`s on a mission to bring peace to the world... by wiping out humanity!