Hiyori Iki is a normal middle school student until she was involved in a bus accident while trying to protect a stranger. This incident causes her soul to frequently slip out of her body, and she becomes aware of the existence of two parallel worlds. Through her soul, she meets the strange, nameless god without a shrine, Yato. Yato is determined to make a name for himself out there by accepting any wishes for 5 yen, including Hiyori's to fix her body.
Yato continues his daily routine as a delivery god who also slays Phantoms when the need arises. Elsewhere, Bishamon is plagued by nightmares from times long past…
Yukine makes a new friend, but soon learns what it means to be a Regalia. Kazuma remains confused by Bishamon's declining health… until he makes a shocking discovery!
Kugaha finally sets his plot into motion and has Kazuma banished. The ensuing chaos causes more pain for Bishamon… and pulls Yukine and Yato into the turmoil too!
Kazuma and Hiyori find themselve captured. They watch helplessly as Kugaha tricks Yato and Bishamon into battling each other to the death!
Yukine shatters in half while Yato and Bishamon battle each other! Elsewhere, Kugaha enacts the second part of his plan by slaughtering Bishamon's Regalias!
Bishamon and Yato learn of Kugaha's betrayal, but most of the damage has already been done. Meanwhile, the giant, masked Phantom continues to hunt down the last remaining Regalias…
Bishamon is forced to confer with the other gods about her recent failings. Elsewhere, Ebisu offers to buy Yukine from Yato for a large sum of money - enough for Yato to build his own shrine.
After Kugaha's defeat, Ebisu decides to conduct certain, secret tests. Meanwhile, Yato reaches new highs and new lows after Hiyori gives him his own shrine…
Yato and Nora head into the underworld to complete one last job together: find and rescue a certain conjurer. But with each passing moment, Hiyori begins to forget Yato…
The heavens are thrown into chaos when the gods learn that Ebisu has been experimenting with Phantoms. Meanwhile, Yato and Ebisu struggle to escape Izanami and leave the underworld behind.
Bishamon and Hiyori manage to track down Yato, but they have no way of getting into the underworld. Meanwhile, Izanami continues to pursue Yato… And if he gets caught, he'll be stuck in the underworld forever!
Bishamon faces Izanami in battle in order to save Yato. Yato's only hope for escape lies in his true name, but he's never revealed it to anyone. Meanwhile, the heavenly executioners have caught up with Ebisu and are prepared to kill him!
The heavens deliver their divine punishment, and Ebisu is forced to start anew. Despite this, Yato is filled with a new sense of purpose and upholds his promise to Ebisu.