Having been best friends since middle school, Haruka Takayama and Yuu Sonoda plan to attend Misato West High School together. However, despite being assigned to the same class, a cruel twist of fate has them seated on the opposite ends of their classroom! To make matters worse, their school will shut down in three years, making them the final intake of first-year students. Undeterred by this chain of unfortunate events, Haruka is set on sticking with Yuu, striving to create many wonderful memories with her. Much to Haruka's jealousy however, Yuu's easygoing demeanor quickly attracts the attention of their female classmates. Sympathizing with her friend's growing insecurity, Yuu ends up sharing a deep, affectionate kiss with her in an empty classroom. The act intensifies their bond as "special friends," gradually revealing a different aspect to their unique friendship while also inviting new conflicts. [Written by MAL Rewrite]

In the future, the "Metal Fight" games are the most popular televised sport in the world and many robot contestants compete for the title of Best Metal Fighter in the World. Kurenai Ken, along with teammate Saeba Shoko (who was, at first, adamant), pilots the Super Robot Fighter, Red Baron and enters the contest with dreams of becoming its champion. He must, however, face an army of other rivals from around the world including Kaizer (who is, in fact, Shoko's supposedly "lost" father, Tetsuo Saeba), the Tetsumen Tou ("Iron Fist" - a reference to the original Red Baron TV series) doctors, Tiger and ShinRon.

Ayato Kamina was separated from the girl he loved, Haruka Mishima, when an event occurred that was thought to have killed everyone outside of Tokyo. But one day three years later, invaders suddenly attacked the city. It was then that he meets an agent of TERRA, Haruka Shitow, who tells him that she will give him the truth about the world. It is the beginning of a series of strange events, which involve him activating a giant mecha, the RahXephon and finding out that many people, including his own mother, has blue blood, and that he was actually living in a self-encased dimension where time moves slower than that of the outside world.

Tooru Kouno's attractive appearance draws unexpected attention on his first day at an all-boys school. Having to transfer to a school without girls has been bad enough, but adding to his list of frustrations are boys staring at him all day long. However, he hopes that there may be girls around, since he ran into a lovely pink-haired girl on campus earlier that day. After being escorted to his dorm by his classmate, Yuujirou Shihoudani, he meets a student named Mikoto Yutaka, who looks eerily similar to the girl he saw previously. To his shock, he realizes Mikoto is the girl and confronts him about this revelation. Yuujirou divulges that he and Mikoto crossdress as part of their job: a school tradition in which attractive first years are chosen as idols called "Princesses" in order to boost the morale of the students—and because of his looks, Tooru has been chosen by the student council as their third Princess!