Toru Acura is a 20-year-old retired soldier meandering through life now that the war has ended. He encounters Chaika Trabant, a 14-year-old sorceress carrying a coffin, and follows her in hopes of finding meaning to his life again. The two travel with Toru's adopted sister, Akari, the employed member of the group and thus Toru's source of income.
The search for the remains of Emperor Gaz continuous. Chaika still in search of really knowing who he really is and what is its purpose. Similarly, the Red Chaika continues the search for the rest. The Gillette corporation continues in the mission to catch Chaika. In their adventure, they give a revealing account kept secret that the Emperor, which, Chaika, Fredrika, Toru and Akari decide to discover the secret.
Mina Tepeş, the Princess of the ancient covenant and ruler of all vampires, wants her race to stop hiding from the humans. Using her vast wealth, she has paid off Japan's entire national debt and by doing so, gained the right to create a district off Japan's coast that is to become the future haven to vampires worldwide. But when she finally attempts to make public the existence of vampires to the world some politicians, terrorists and rival factions are plotting to assassinate Mina before she has a chance to get Japan's and international recognition for the Vampire Bund. Now she must rely on her strength, cruelty and those closest to her, while trying to make a normal life.
In a far distant future, humanity has embraced the Fractale system as the ultimate path towards utopia. Comprised of several trillion networked computers, Fractale was created in the 22nd century to promote a peaceful lifestyle for the entire world in exchange of a periodic recovery of personal data from individuals through terminals located within their bodies. Living in a rocky coast region, Clain is a young boy fascinated by old technology. After helping a girl named Phryne, she gives him a pendant before disappearing by the next morning. Accessing the data from the peculiar gift, Clain ends up summoning a girl-shaped avatar named Nessa. Together they start a journey as they discover the truth behind the Fractale system.
Jr., the heir of Romana and his battle sabers Cherry and Lime, who have girl circuits are enjoying their peaceful life in Romana. Suddenly, the evil Star-Face and his sexadolls attack Romana in order to take over so Star-Face can become the next High Official. In order to truly become the next High Official and ruler of Romana, he must first eliminate Jr. This begins a battle for, not only Jr.'s life, but for all of Romana.