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A group of 15 elite high school students are gathered at a very special, high class high school. To graduate from this high school essentially means you'll succeed in life, but graduating is very difficult. The school is presided over by a bear called Monokuma, and he explains to them that their graduation hinges around committing a murder. The only way to graduate is to kill one of your classmates and get away with it. If the other classmates discover the identity of the killer, the killer is the only one executed. However, if they fail to catch the killer, only the killer graduates and the others are annihilated. Which of the 15 will survive the bloodbath to come?

A group of 15 elite high school students are gathered at a very special, high class high school. To graduate from this high school essentially means you’ll succeed in life, but graduating is very difficult. The school is presided over by a bear called Monokuma, and he explains to them that their graduation hinges around committing a murder. The only way to graduate is to kill one of your classmates and get away with it. If the other classmates discover the identity of the killer, the killer is the only one executed. However, if they fail to catch the killer, only the killer graduates and the others are annihilated. Which of the 15 will survive the bloodbath to come?

Hope's Peak Academy is a special school, recognized by the government, that was established in order to gather and nurture top-class students who excel in various fields. This school has two courses: The main course, and the preparatory course. Anyone with the money can enter the preparatory course, even if they don't have any special skills. The 77th class of the main course is filled with students who not only have unique abilities, but unique personalities as well. However, the students learned that "Talent isn't the most important thing in life; it's to involve yourself with people and make yourself a better person while making memories." However, little did they know that a mysterious project and discrimination of the courses were happening right under their noses. Hajime Hinata, a boy from the preparatory class who craves for an ability. The fateful meeting he has drives the future of the school into an unimaginable direction. This is the story of what happened up until the "The Biggest, Most Awful, Most Tragic Event in Human History." This is a story of hope that ends in despair.

The world was close to being destroyed by Ultimate Despair, who caused "The Biggest, Most Awful, Most Tragic Event in Human History." In order to save this world from the event's chaos, the Future Foundation was formed. Although the organization continues its activities to restore the world, Makoto Naegi is under suspicion of treason due to him shielding a Remnant of Despair. The Future Foundation members had gathered together to decide on his punishment, but they all end up getting trapped inside the place they were meeting by Monokuma, who demands that they begin the "Final Killing." They have strange bangles put on their wrists, and are given tranquilizers when a certain time arrives. To make things worse, there apparently is a real traitor amongst their ranks who is coming to kill the members of the Future Foundation. In this game where class trials don't exist, the only way to get rid of the traitor is to find him and kill him off. Naegi is forced to face the ultimate death game, where it's kill or be killed. The tale of despair in which hope kills hope begins.

Side: Hope of Danganronpa 3: The End of Kibougamine Gakuen. Kibou-hen serves the finale for the entire Danganronpa 3 anime series