A small percentage of adolescents have onsets of special abilities. Yu Otosaka deftly uses an ability that takes over a target's body for five seconds to live the school life of an honor student, and gets accepted into a prestigious high school. Just when Yu is about to live a stable life in high school, a girl named Nao Tomori appears before him...

Information concerning a new ability wielder reaches Yu and the active student council members. In their search of an individual with two abilities of soul possession and pyrokinesis, Yu and company comes across a particular pop idol.

The information of an ability wielder that Kumagami relays to the student council on the day Yusa transfers into Hoshinoumi Academy points to a high school baseball pitcher that Tomori already had her eyes on. His ability is telekinesis. Against a pitcher that uses his ability to pitch what could be called diabolical balls, the Hoshinoumi Academy student council challenges him to a game of baseball to make him stop doing so.

With the information from Kumagami as a hint, the student council members continue a stakeout in the middle of the mountains where a wielder of a special ability supposedly hangs out. As they spend their time barbecuing and fishing, Yu comes across the music of ZHIEND through Tomori's music player. And, the one that appeared in front of them as they continued the stakeout...

The location of the new ability wielder according to Kumagami was the condo where Ayumi was currently home with a cold. Ayumi tells Yu and Tomori who came to see how she was doing about the nightmare that she had. Tomori, thinking that the dream's details can be a hint in figuring out Ayumi's ability, tells Yu to draw out the contents of Ayumi's dream from her...

Yu, crestfallen by the fact that he lost his little sister Ayumi, shuts himself alone inside his home and cuts all communication with the outside world. Denying even the worried student council members that came to check on him, Yu leads a dissolute life only to find appearing before him...

Yu, starting to accept Ayumi's death, attends school for the first time in a while. There, he finds comfort in a school life that has not changed from before. Then, he ends up having to attend a ZHIEND live gig alone with Tomori, but on the way back home from school that day, he bumps into a foreign-looking woman carrying a white cane.

Yu ends up heading to a ZHIEND live gig alone with Tomori. The gigs starts and the audience heats up, but Yu feels a strange feeling within his heart...

Yu's big brother Shunsuke has the power to leap through time, but has lost his eyesight from utilizing this ability repeatedly, and is no longer able to use his power. So, now Yu must take his big brother’s place and save Ayumi.

Kumagami and Medoki appear before Yu Otosaka after he successfully rescues Ayumi. Within the laboratory facilities that they take the siblings to, Yu finds out the reason behind the outbreaks of special abilities. Kumagami then gains information regarding a new ability wielder and heads to Hoshinoumi Academy, but...

The friends from student council and Ayumi come visit Yu who is hospitalized from his injuries. Among them is Tomori. During his conversation with Tomori, Yu makes a certatin decision.

The decision that Yu makes is to plunder the ability of every last wielder of a special ability on Earth.

It is a choice that provides salvation to every ability-wielder, but at the same time, it is a choice that makes Yu pay a huge price in return.