Ancient ruins are found at Shinanome High School in Japan. Makoto Mizuhara, a young student, who has recently been confronted by school president, Katsuhiko Jinnai, for finding out things that Jinnai would rather keep secret, unlocks the secrets of these ancient ruins. After unlocking the ruins, a young girl appears and whisks Makoto, Jinnai, Nanami Jinnai, the younger, spunky sister of Jinnai, and Mr. Fujisawa, the drunk history teacher, to El-Hazard: The Magnificent World.

After Alielle and Makoto have their "interesting" first meeting, Alielle explains how she went off to see her parents while the princess was kidnapped. Eager to help Makoto and Fujisawa on their journey to see the Priestesses of Mount Muldoon, Makoto is given Ura, Fatora's pet cat who also doubles up for armour.

Makoto Mizuhara, Nanami, and Mr. Fujisawa find themselves on an unexpected detour. Their journey through this new world leads them to a traditional hot spring resort. Makota must maintain his disguise as Princess Fatora in an all-woman spring.

Hearing the news that Jinnai is after the legendary demon god, the priestesses, accompanied by Makoto, Alielle, Fujisawa and Nanami, set out to travel to the Forbidden Island, the holding place of the demon. However, when they arrive, they discover that Jinnai has been tailing them since they left and the whole thing was a giant ploy to show the Bugrom the way to the island.

As the battle for El-Hazard intensifies, Makoto Mizuhara and his allies, including the Priestesses of Muldoon, find themselves on a quest to confront a powerful force. Meanwhile, Katsuhiko Jinnai, now leading the Bugrom forces, sets his sights on unleashing the legendary Demon God Ifurita, a being of immense destructive power.

Following the intense confrontation involving Ifurita, Makoto Mizuhara and the Priestesses of Muldoon are faced with a new, grave threat: the activation of the Eye of God, an ancient and immensely powerful weapon of destruction.

Following Ifurita's selfless sacrifice to save El-Hazard from the out-of-control Eye of God, Makoto Mizuhara is left with a profound sense of loss and a new, desperate mission: to somehow reunite with her across time and space.

Some time after the events that saw them return to El-Hazard, Makoto Mizuhara, the recently wed Mr. Fujisawa, and the Priestesses of Muldoon, including the newly appointed Priestess of Water Qawoor Towles, are gathered for Qawoor's initiation ceremony. However, during the ceremony, Katsuhiko Jinnai, ever the schemer, attempts to infiltrate Makoto's laboratory.

Scattered across the unfamiliar world of Cretaria after the dimensional shift, the group struggles to find their bearings. Makoto Mizuhara finds himself separated from most of his friends, while Rune Venus and Princess Fatora (who has also been transported) discover they are in a strange, royal-looking palace.

Still separated and stranded in the new world of Cretaria, Makoto Mizuhara and his allies continue their efforts to regroup. This episode focuses on the harsh, icy region where Shayla-Shayla and Katsuhiko Jinnai have inadvertently landed.

As the scattered denizens of El-Hazard continue their struggle for survival and reunion in the strange world of Cretaria, Makoto Mizuhara, along with other separated companions, finds himself arriving at the same technologically advanced, yet secluded village where Nanami and Qawoor had previously landed.

As the scattered inhabitants of El-Hazard navigate the peculiar world of Cretaria, Makoto Mizuhara and his group arrive at a mysterious, idyllic village that appears to be a paradise.

As the displaced inhabitants of El-Hazard continue to navigate the strange new world of Cretaria, Nanami Jinnai takes center stage with her ever-present entrepreneurial spirit. Finding herself in a new area with Qawoor Towles, Nanami seizes the opportunity to establish a highly successful delivery and messenger service.

As the scattered denizens of El-Hazard continue their arduous journey through Cretaria, they stumble upon a mysterious and perilous ancient labyrinth.

As the various groups of travelers from El-Hazard continue their journey through the enigmatic world of Cretaria, Makoto Mizuhara and his companions stumble upon what appears to be a luxurious oasis or a seemingly friendly settlement. However, this enticing haven quickly reveals itself to be a cunning trap, designed to ensnare them through alluring yet deceptive means.

Makoto uncovers a situation where a sacred law or ancient rule of Cretaria has been transgressed, leading to unforeseen and potentially devastating consequences.

As the various factions from El-Hazard continue to navigate the strange world of Cretaria, Makoto Mizuhara finds his path inevitably crossing with his enduring rival, Katsuhiko Jinnai.

Makoto Mizuhara and his allies uncover a critical secret: a past error or grave mistake that was sealed away, deeply impacting the present state of this new world.

As the disparate groups from El-Hazard finally converge and the truth about Cretaria begins to unravel, Makoto Mizuhara and his allies discover the existence of the "Abominable Gateway to Heaven."

Qawool begins her purification ritual to become the Priestess of Water.