Somewhat based on the real story of how Gainax was founded, Otaku no Video addresses all aspects of an otaku lifestyle. Ken Kubo is a young man living an average life until he is dragged into a group of otaku. Slowly, he becomes more like them until he decides to abandon his former life to become king of otaku—the otaking! Mixed in are live-action interviews with real otaku, addressing every aspect of hardcore otaku life. Not only are anime and manga fans included, but also sci-fi fans, military fans, and other groups of Japanese geeks.

In the far future, the elevated irradiation from the sun has destroyed the environment of the earth and the birthrate of humans has drastically decreased. The government controls society with an army of cloned soldiers called "Ideal Children (IC)". Sam Coyne is a trader in a desert. One day, he saves a beautiful woman Maya, who has been chased by Theseus, a corps of IC. He shelters her in his trade ship, but the destroyers of Theseus surround Sam and Maya.

A psychic ninja fantasy suggesting that the assassins did not die out during the Sengoku era but burrowed under Japan, where they fought a new war against the alien occupants of a crashed spaceship that has lain undisturbed for several millennia.

The Mizuchi bloodline has long been hunted by Yokai, or monsters. Toru and Noboru Takagami are descendents of this bloodline, and under their grandmother's discretion, are given a secret weapon to combat these monsters. It is Tenko Kugen, a fox deity who can take the shape of a man or woman at will. The mischievous deity is accompanied by a shrine maiden, Ko, who will both live with the Takagami brothers at their house. Life just got complicated.