In the final days of World War II, the Nazis attempt to use black magic to aid their dying cause. The Allies raid the camp where the ceremony is taking place, but not before they summon a baby demon who is rescued by Allied forces and dubbed "Hellboy". Sixty years later, Hellboy serves the cause of good rather than evil as an agent in the Bureau of Paranormal Research & Defense, along with Abe Sapien - a merman with psychic powers, and Liz Sherman - a woman with pyrokinesis, protecting America against dark forces.

A nine year old boy named Joey, who after the tragic death of his father, begins to experience psychic powers such as allowing him to move inanimate objects with his mind, set things on fire, and even communicate with his dead father. However, not everything is good for Joey as his newly gained powers accidentally awake an evil supernatural force that is contained inside the body of an old ventriloquist's dummy that Joey found in an abandoned house. The supernatural Dummy shows similar powers to Joey's, and soon he puts the lives of everyone near Joey in danger as the evil Dummy has dark plans for Joey's special powers.

On the day Tōma Kamijō and Index see Academy City's space elevator, Endymion in the distance, they meet a Level 0 girl with an amazing singing voice, Arisa Meigo. As the three enjoy their time together after school, magic-user Stiyl Magnus suddenly attacks them. His target: Arisa. Why would a girl from the science side be targeted by someone from the magic side, Tōma wonders. In the chaos of Stiyl's attack, he tells Tōma, Index and Arisa that she might cause a war between the magic side and the science side.

Bonus animation featuring Index-tan included with the BD special edition of the Toaru Majutsu no Index: Endymion no Kiseki movie.

Documentary exploring such phenomena as astral projection, telekinesis, telepathy, voices from beyond the grave, ghosts/spirits, etc.