In the new series' story, the balance of the Creature World is starting to crumble. A talking deck case named Decky comes to the human world to search for a Duel Master to preserve equilibrium. There he sees Joe's power to create creatures. (Source: ANN)

A.D. 2089 - 80 years have passed since Space War I changed the lives of both human and Zentraedi races. Both races are at peace on Earth when a new alien race called the "Marduk" appear within the Solar System. While covering the first battle between the U.N. Spacy and the Marduk fleet, SNN rookie reporter Hibiki Kanzaki discovers Ishtar, an "Emulator" that enhances the Marduk's combat abilities through singing. Hibiki brings Ishtar to Earth to teach her the values of life and culture. Together with ace Valkyrie pilot Silvie Gena, Hibiki and Ishtar must find a way to save Earth from total destruction at the hands of the Marduk leader Ingues.

The story takes place one year after the OVA. Because of the previous war, Kabucki-cho was devastated, and the owner abandoned his lingerie pub, "Pallion," and opened "New Papillion" in Akihabara. During the war, Tsubomi, and her colleagues Anne and Shizuku lost their memories, and they began new lives in Akihabara. On the other hand, the Susano, aliens who were invading the Earth, appeared. They turned a UMA (Unidentified Mysterious Animal) into a monster and make it raid on Akihabara. Rama the cat made Tsubomi and her buddies retrieve their memories, and let them fight against the monster as Lingerie Soldiers.