Come spring, Nishiwaki Haruka becomes a second year high school student. For a second time. Due to accidents and illnesses, she didn't have enough attendance, thus the repeat year. She transferred to Yamabuki High to run away from her old friends. One day, the baseball team from her old high school came for a friendly match, and Haruka bumped into some old friends. Her new classmate, Ono Kenta, found out her secret. She agreed to be the manager-come-player to their weakling baseball team in order to keep him from telling her secret...

The prodigy, Isshiki Kyouya, selected Sasa Kenjirou as his piano teacher. Sasa, who used to be a prodigy, thought that his own potential was limited when he heard the young Isshiki played at a concert. However, Isshiki was actually captivated by Sasa’s music instead years back. Their love for each other was connected through their music. With the reverberating affection, this relationship blossomed miraculously.

Rito is a high-school boy who just can't confess to the girl of his dreams, Haruna-chan. One day when coming home and sulking in the bath-tub, a mysterious and barely clothed girl appears out of nowhere. Her name is Lala and she comes from another planet...

In the story it is revealed that when Ichigo Momomiya, the protagonist from the original Tokyo Mew Mew, is studying in England with Masaya Aoyama, Berry Shirayuki is introduced. Berry is trying to adjust to the private school which she has just transferred to. She later runs into Ryou Shirogane, who she follows into Café Mew Mew. While Berry is staring in awe at the cakes and pastries, Ryou sees her and yells, wondering who she is. Berry, caught by surprise, falls on top of the snacks. Embarrassed, she runs with her eyes closed into the employee's only section of the Café, and runs into the DNA-infusion device. She is transformed into a Mew Mew, with the DNA of a rabbit and a cat. She must temporarily take Ichigo's place as leader of the Mews to defend Tokyo from the Saint Rose Crusaders, while juggling her schoolwork and her new job at the Café. When Ichigo returns, she and Berry quickly become friends and she and the other Mew Mews move to her school in case of an attack