The carefree Tsunami is next in line to rule over the Magical Kingdom of Juraihelm. But before she is officially crowned as queen, she must restore balance to the universe that has come to favor darkness. To accomplish her goal, Tsunami gives the ordinary Sasami Kawai a magical baton that can transform her into a magical girl. She also appoints the rabbit-like creature Ryou-Ouki to aid Sasami in the battle against evil. However, Sasami refuses to become a magical girl—not because she is scared, but because she finds it too embarrassing! Meanwhile, the arrogant Ramia is plotting to overthrow Tsunami by enlisting her own magical girl—the eccentric Pixy Misa—to cause chaos and ensure that balance is never restored. As Pixy Misa terrorizes the planet with her Love-Love monsters, Sasami must learn to swallow her pride and accept her role as the universe's champion of justice, Pretty Sammy.

Following the events of Scorched Halloween, the world is introduced to a terrifyingly powerful Strategic class magician. In an effort to uncover the identity of this person, the United States of the North American Continent (USNA) dispatches the most powerful asset in its arsenal to Japan on a covert mission—the elite magician unit Stars and its commander, Angie Sirius. At First High School, Tatsuya Shiba and his friends are having a farewell party for Shizuku Kitayama, who is leaving to study abroad in the USNA as part of an exchange program. In her place, the group welcomes the beautiful Angelina Lina Kudou Shields. Around the same time, Tatsuya is informed about the USNA's plan to uncover his true identity. Elsewhere in Tokyo, numerous reports arise of seemingly random bodies found drained of blood. Dubbed as the works of a vampire, it does not take long for Tatsuya to connect the dots and realize that it is almost impossible for the timing of these events to be mere coincidence.

Chise Hatori, a 15-year-old Japanese girl, was sold for five million pounds at an auction to a tall masked gentleman. Abandoned at a young age and ridiculed by her peers for her unconventional behavior, she was ready to give herself to any buyer if it meant having a place to go home to. In chains and on her way to an unknown fate, she hears whispers from robed men along her path, gossiping and complaining that such a buyer got his hands on a rare Sleigh Beggy. Ignoring the murmurs, the mysterious man leads the girl to a study, where he reveals himself to be Elias Ainsworth—a magus. After a brief confrontation and a bit of teleportation magic, the two open their eyes to Elias' picturesque cottage in rural England. Greeted by fairies and surrounded by weird and wonderful beings upon her arrival, these events mark the beginning of Chise's story as the apprentice and supposed bride of the ancient magus.

While taking a ferry to Fuuka Academy, new students Mai Tokiha and her sickly younger brother, Takumi, spot a girl adrift on the water. Shortly after bringing her aboard, the ferry comes under attack from an assailant who summons a mechanical monster. Despite still recovering from her injuries, Mikoto Minagi fends off the monster using a supernatural sword. Mai soon discovers that Mikoto is a fellow Fuuka Academy student with abilities called HiME (Highly-advanced Materializing Equipment). Female students with HiME are responsible for defending the academy and the local city from the monstrous Orphans. After several incidents at the school involving battles against these mysterious creatures, Mai learns that she is a HiME herself and is capable of summoning a Child, a mechanical creature capable of great utility and firepower. Now burdened with new responsibilities, Mai joins 12 other HiME as they safeguard the school from a threat they know little about all while protecting the ones closest to them.