Utena Tenjou is a schoolgirl in the eighth grade of Ohtori Academy. She has the strange memory that, when she was very young, she met a mysterious "prince" and was given a ring with a rose signet. One day, Utena finds guys are making fun of a love letter somebody posted, and she finds it was written by her best friend, Wakaba, for the captain of Kendo Club, Saionji. For the sake of her best friend, Utena challenges Saionji to a duel. Then, Saionji tells her to come to the forest of the Duel Arena.

Winning the duel with Saionji, Utena is now the Victor of the Duel and is to be "engaged" to the Rose Bride, who is Anthy. Next day, Utena and Anthy start living together in a dorm. Saionji, who is actually really in love, asks Anthy to get back on good terms with him, but Anthy refuses. Then, he challenges Utena to a rematch. Feeling the whole thing is just crazy, Utena decides to lose the Duel on purpose.

Utena unintentionally unleashed the Power of Dios in the last Duel with Saionji, which attracted Touga's interest in her. Touga sends Utena a dress for the upcoming ball. On the other hand, Touga's sister, Nanami, thinks her brother likes Anthy, and in a fit of jealousy, she sends Anthy a water-dissolvable dress.

Utena and Miki are about to begin a duel. The rest of the episode and the following one are flashback to show what has caused this duel. Miki often plays a particular tune on the piano. He says he cannot truely play the tune as he wishes because he has lost a "glow". Nanami thinks that Miki likes Anthy, and from jealousy, she tries to tease and razz her. Taking advantage of that, Miki makes a good friend of Anthy, and then Utena. Finding Anthy and Utena got poor grades in the previous math exam, Miki offers to tutor them. However, Nanami won't leave them alone.

In the tune Anthy just casually played, Miki found a "glow" that he had been seeking. He has a twin sister, Kozue, who used to play a tune with a "glow". However, she does not play the piano anymore because (he thinks) of his fault. Miki wishes to protect Anthy's "glow" in her tune; however Anthy tells him that, because she is the Rose Bride, by the Rose Signet Code, she must obey the Victor of the Duel, or Utena at the moment. She even says that, if Utena told her not to play the piano anymore, she would not. Since he thinks it is his own fault that he lost Kozue's "glow" in the past, not to lose a "glow" again, Miki challenges Utena to a duel and tries to set Anthy free and protect her with his own hands

There is only one black rose left now. Akio is wondering if Mikage will finally fight Utena himself. But instead of fighting, Mikage decides to include Utena in his side, and asks Utena to join his Mikage Seminar, but Utena turns it down. Mikage talks about Nemuro Memorial Hall, where Mikage now holds his seminar. Decades ago, there was a professor called Professor Nemuro, who was doing some research at the hall. One day, there was a fire, and the hall burned down, which took away 100 lives of his students.

Anthy and Utena move out of their dorm and into the right wing of the chairman's office so Anthy and Akio can be closer to each other. Then suddenly Saionji comes back to duel!

Utena has started thinking about her Prince again.. and if she's allowed to love someone else. Utena's world is about to change even more so.

Anthy has Akio deliver some roses to a far away place, taking Utena with him. After a day at the Carnival, Utena and Akio bond late at night.

Utena is invited to a theater play, and takes Akio and Anthy. Unfortunately, she doesn't know that the play is about the truth behind the Rose Bride and the prince.

Utena has gone though many battles.. Friends, Student Council, and people she barely knew. Nothing will compare though, to the battle she must fight now. Will she battle or will she not?

Utena vs. The End of the World. The truth is discovered.. about the duels, the Rose Bride, and the Prince.

Everything comes to an end. Something shiny, eternity, miracles, the revolution of the world. Catch the stunning climax to Revolutionary Girl Utena!