Otori Sakko is a second-year student at Enoshima Academy, a private school for gifted students. Cocky and fearless, he is often shunned by his peers. One day, Sakko's recently deceased friend Sayo reappears and starts talking about 12,000 year-old myths.

The Elementals learn that the beast they fought is a Shadow Angel from mythic space. Their role is to fuse the Vector Machines into Aquarion and fight those enemies back. Sakko recalls playing with Sayo, Momohime, and a certain robot in an Enoshima cave.

The universe's ability to self-correct made Sayo's funeral occur before her death. It seems only the Elements are aware that Sayo was in their class, but when Momohime asks about it, the students share a vision of a super-civilization with winged beings.

After piloting Aquarion together, Momohime and Rimiya sense a special connection to each other. They go on a date to try to understand their feelings.

The Elements battle another Mythic Beast and make a strange new friend while pondering their school's legends.

Hana keeps trying to attack Momohime and Sun makes mysterious comments about the beasts to the other Elements.

Hana starts questioning the nature of the Beasts while Sun draws mesmerized students to a mysterious activity.

Momohime urges Sakko to explore his feelings for Sun before another Beast attack threatens the whole universe.

Sakko and friends find themselves trapped in a hellish landscape where they start to feel unfamiliar emotions.

As Sakko and friends learn more about their past, they ponder ways to prevent the destructive union of worlds.

With Momohime's fate in doubt, the Elements recall past experiences and face a potentially devastating battle.

The World Awakening Council reveals its agenda while past and present overlap as the universes begin to unite.