As a member of a malevolent organization, the General is tasked with invading Earth and wiping out humanity. Even an extraterrestrial being like him, however, needs a chance to rest. Not even the Rangers—a team solely dedicated to defeating the General and his colleagues—will stand in the way of him visiting pandas at the zoo, buying ice cream at the convenience store, and enjoying his well-deserved day off from committing evil deeds.

In 1931, the Tokugawa Shogunate remains in power, marking the 64th year of the Meiji era. Holding a monopoly over the newly discovered Dragon Vein, the government is leading Japan toward an advanced Edo period. During this time, an elite force of executioners called Nue is tasked with defending the Shogunate from a rebel institution known as the Kuchinawa. As the owner of the Tsuyukasa Bookshop, Sawa Yukimura runs the store's day-to-day business inconspicuously. But behind the scenes, she seeks vengeance against the man who slaughtered her tribe and family. With a special ability to transform granted by her blue blood, Sawa joins Nue after being promised information regarding the target of her revenge: Janome, the leader of the Kuchinawa.

Modern Germany is plagued by an outbreak of Amalgams. Existing solely to wreak havoc, these cybernetic entities spawn from rotting flesh and can fuse with technology to gain new abilities. With society left in the wake of their destruction, the Xenogenesis Assault Team (XAT) is formed to suppress the threat. Alongside its primary mission to protect against the Amalgam attacks, the organization is also researching the newly discovered amalgamated humans which possess rational thought and are far deadlier than their non-sentient counterparts. Joseph Jobson is one such amalgamated human who has full control over his powers. Although successful in his line of work as a lone warrior, an unfortunate encounter with the recently-turned-Amalgam Gerd Frentzen makes him a priority target of the XAT. As he eludes the organization and seeks new allies, Joseph is transformed into the Blassreiter—a being heralded as the strongest Amalgam in existence. Now, he must fight back with his newfound powers to uncover the truth behind not only his past, but also the entire Amalgam conflict.

Hikaru Shidou, Umi Ryuuzaki, and Fuu Hououji are strangers brought together by fate when they meet during a seemingly normal field trip to Tokyo Tower. Accompanied by a great flash of light, they hear a mysterious woman's plea to save Cephiro, and the junior high heroines are suddenly swept away by a giant flying fish. Afterwards, they arrive in an unknown land, where they encounter a man called Master Mage Clef. Clef informs the girls that they were summoned by Princess Emeraude to fulfill their destinies as Magic Knights, restoring peace and balance in Cephiro. The formerly lively and peaceful land has been in disarray ever since High Priest Zagato imprisoned the princess, who acted as Cephiro's pillar of stability. The Magic Knights reluctantly accept Clef's words as truth and embark on a journey to save Cephiro from the clutches of evil.