Reports abound of a Phantom attacking students and taking their special abilities. Meanwhile, Haruhiko is reunited with his mother.

Haruhiko returns to his childhood -- literally -- and he doesn't remember ever being any older.

A witch Phantom grants Ruru's wish to become human. She gets her wish, but...

Clumsy Haruhiko and violent Mai need more people on their Phantom-fighting team. They meet a Phantom Eater, Reina.

Upon learning the truth of their past and the meaning behind the worship of noro in shrines, Kanami and Hiyori decide to join Mokusa in their mission to overthrow Origami Yukari. However, Mai finds herself wavering, unsure of her purpose. While the village is enjoying their annual festival, Yume suddenly attacks with the special military unit.

Kanami and the others arrive at Mokusa's headquarters and meet with Origami Yukari's younger sister, Akane. The girls learn the truth of the Great Disaster of Sagami Bay that occurred 20 years ago from her and Friedman. The truth of that day is vastly different from what the young Toji have been taught in school.

Hiyori and Kanami are finally introduced to FineMan the Mokusa organization after escaping on a Mokusa submarine. Meanwhile, in Renpu, Yukina tries to force Sayaka to be injected with aradama, but Sayaka suddenly refuses and runs away. Mai comes to Sayaka's rescue but the girls are pursued and attacked by Yume and find themselves escaping into Mokusa's protection.

Having been captured by the elite guard Ellen is submitted to interrogation by Suzuka at their temporary command post. Meanwhile, Kaoru manages to rejoin Kanami and Hiyori with the intentions of taking them to their organization's headquarters, but without Ellen the girls press Kaoru for more information. Ellen takes advantage of her captivity to investigate the elite guard's secrets.

Ellen and Kaoru once again catch up with Kanami and Hiyori, only this time they say they wish to test them. Upon passing the test, Ellen and Kaoru reveal themselves to be members of a secret organization that is resisting Origami Yukari. However, the girls are suddenly attacked by three of the members of Yukari's elite guard and the secret behind their indomitable strength becomes horrifically apparent.

After releasing Sayaka, Kanami and Hiyori part ways with Rui and agree to meet with the mysterious online presence, "FineMan," in Izu. Meanwhile, back in Kamakura, Kohagura Ellen and Mashiko Kaoru are ordered by the president of Osafune Girls' School to go after Hiyori and Kanami, but where do their loyalties truly lie?

Kanami and Hiyori are taken in and given a place to stay by a former Minoseki Toji named Onda Rui. The girls are able to slow down and consider their next move. They realize their enemy might be a much greater force than they thought and just as things look bleak, Rui introduces the girls to someone else willing to help them in their struggle.

On the day of the final battle Kanami and Hiyori disappeared into the depths of the netherworld along with Princess Tagitsu and have not been seen since. Two months have passed and the world has largely returned to normal. With their whereabouts unknown, Kanami and Hiyori wander separately through the netherworld unsure of where they are going or how much time has passed.

The gateway to the netherworld continues to expand to the point where it has started to consume the real world. Complete demise creeps ever closer as time passes. After miraculously managing to rescue Hiyori, the girls prepare to face Princess Tagitsu with the hope and fate of the world resting on their shoulders.

After absorbing Hiyori, who fused with Princess Ichikishima, Princess Tagitsu has finally obtained the complete power of the three goddesses. Upon returning to the city, Princess Tagitsu begins to open the door between this world and the netherworld. Meanwhile, Kanami and the others have been dispatched to deal with the more frequent aradama appearances. Mai and the rest of the team can tell that Kanami is pushing herself too hard.

Having fused with Princess Ichikishima, Hiyori gains the power of an evil god and overwhelms Princess Tagitsu; however, she is unable to control such a vast amount of power and runs away from Kanami. Worried for her friend, Kanami reluctantly returns to report on the situation on Yukari's instruction. Using her own experience of coexisting with the aradama, Yukari tries to help Hiyori learn to control the entities within her.

Being pursued, Yukari and Princess Ichikishima escape the submarine and make it to land where they find themselves confronted by the imperial guard, but manage to fend them off and continue their escape. Learning of their whereabouts, Kanami and the others follow after to try and rescue them. Before they leave on their mission, Maki pulls Kanami aside to issue a warning about Hiyori's strange behavior.

After her attempt to assassinate Origami Yukari fails, Hiyori is able to escape with Kanami's aid. Meanwhile, there is much confusion back at the tournament over this unprecedented incident on the head of the Origami family. The school presidents are called in and a manhunt for the fugitive Toji students commences.

Kanami and the others return to headquarters feeling down and defeated after not being able to save Princess Takiri. The girls try to focus on their duties while dealing with their apprehension against Princess Tagitsu and her growing strength. Maki and Suzuka make the case that they should wait for Princess Tagitsu to make a move before they do anything. At that moment, Princess Tagitsu appears on the television.

Chosen to be part of Princess Takiri's defense force against Princess Tagitsu, Hiyori and Kanami once again meet with the eccentric aradama along with Akane in an attempt to get her on their side. Kanami works to make Princess Takiri understand that there is more to humans than meets the eye.

Hiyori and Kanami continue escorting Akane, this time, as she meets with her sister onboard a submarine in the Pacific Ocean. From Yukari they learn more about the three separate entities that used to make up the great aradama that used to possess her. Meanwhile, Yukina and Yomi force the Ayanokouji president to make a tough choice.