Hitomi Kanzaki is just an ordinary 15-year-old schoolgirl with an interest in tarot cards and fortune telling, but one night, a boy named Van Fanel suddenly appears from the sky along with a vicious dragon. Thanks to a premonition from Hitomi, Van successfully kills the dragon, but a pillar of light appears and envelopes them both. As a result, Hitomi finds herself transported to the world of Gaea, a mysterious land where the Earth hangs in the sky. In this new land, Hitomi soon discovers that Van is a prince of the Kingdom of Fanelia, which soon falls under attack by the evil empire of Zaibach. In an attempt to fight them off, Van boards his family's ancient guymelef Escaflowne—a mechanized battle suit—but fails to defeat them, and Fanelia ends up destroyed. Now on the run, Hitomi and Van encounter a handsome Asturian knight named Allen Schezar, whom Hitomi is shocked to find looks exactly like her crush from Earth. With some new allies on their side, Van and Hitomi fight back against the forces of Zaibach as the empire strives to revive an ancient power.

In the year Cosmic Era 0071, a wartime brawl between two mobile suits results in the destruction of a neutral country. Shinn Asuka finds his entire family killed as casualties of the violence, and swears his life toward a vengeful pursuit of the Earth's Natural forces, under the impression they were the ones responsible for his family's death. Shinn works his way up through the ZAFT military forces, eventually gaining access to the cockpit of the prototype Impulse mobile suit. Athrun Zala, a veteran of the recent war employed in the service of diplomat Cagalli Yula Athha, finds himself drawn into a new conflict between the Naturals and the Coordinators: human beings artificially enhanced before birth and hated by the Naturals for their biological advantages. As the new war rears its head and violence becomes inevitable, Athrun finds himself as a mentor to the bitter Shinn. Athrun must steer the young pilot towards a mindset of mercy before his rage and desire for vengeance consumes him.

Years ago, a tragic incident befell a young princess when both her parents died. Devastated, it seemed nothing would calm this poor soul. However, a prince traveling through the area came to see the princess, hoping to cheer her up. After wiping her sorrowful tears, the prince gave her a ring carrying a rose emblem and told her as long as she holds onto the ring, they are destined to meet again. The event leaves a deep impression on the girl, Utena Tenjou, leading her to become a prince herself. Years later, Utena attends Ootori Academy, recognized by the same rose emblem as her precious ring's. There, attracted by the scent of roses, she witnesses Anthy Himemiya tending the flowers, accompanied by the Student Council President Touga Kiryuu and Vice President Kyouichi Saionji, who seem to be arguing over Anthy. While Utena thinks nothing of the occurrence, the Student Council gathers to discuss an important matter. Subsequently, a misunderstanding leads to Utena being dragged into the world of Duelists—those with rings similar to her own. The Duelists fight for the ownership of the Rose Bride, Anthy Himemiya, who is said to possess great power. Wanting to prove her capabilities as a prince, and enraged that Anthy is being wronged and objectified, Utena resolves to fight against the Duelists to save her from the cruel fate.

For the past 13 years, the Nefarious Monster Army have appeared beneath their floating fortress every Sunday to advance their goal of conquering Earth. Luckily, the Dragon Keepers are here to save the day! Having defeated the majority of the monsters during their initial invasion, the heroes now routinely show up to clear away any remnants of resistance. Unbeknownst to the public, however, every fight beyond the first has been a deliberate show put on by both sides: the Dragon Keepers reap the fame and prestige from fighting imaginary enemies, while the surviving weakest monsters, altogether called Dusters, are allowed to live for another day. Sentouin D, a Duster tired of living this life of shame, leaves the fortress in an attempt to overturn his fate. With the unexpected help of the mysterious ranger Yumeko Suzukiri, he discovers the key to defeating the Dragon Keepers lies in their Divine Artifacts—ultimate weapons crucial to the rangers' transformation and unique powers. Teaming up with Suzukiri to infiltrate the garrison of Red Keeper Sousei Akabane, Sentouin D must defy all expectations to save his species from the cruel hands of humans.