Everyone voted for Junko.

When the judgment came down, Kyoko studied Junko's face carefully. She wondered if Junko would cry or scream or protest or beg like all the others she had executed. But no. Her expression was hard to read. It wasn't quite resignation and it wasn't quite excitement. Satisfaction, maybe? She stood and walked willingly into the execution room. The others stood at a safe distance as Junko subjected herself to miniature versions of all the punishments she had visited on others. She was pelted with baseballs, spun in violent circles, and blasted with a high energy laser beam. A battered, singed, and woozy Junko then walked – no, strutted – over to a desk on a conveyor belt. She sat at the desk and the conveyor belt creaked into action, pulling her slowly closer to a column that rhythmically rose and fell. The moment the conveyor pulled her under that column, Junko would be mashed to bits.

Then Junko smiled darkly, opened the laptop that was sitting at the desk, and turned it around so that the screen faced the students. It was Alter Ego. The A.I. displayed a soft expression, full of sadness and love. Kyoko got the impression it was telling them that while it wished things had turned out differently, it didn't regret what it did and wished them the best. Kyoko bowed her head in respect.

CRUNCH*

When she pulled her head up again, only a bloody mess full of wood shrapnel from the desk and electronic shrapnel from Alter Ego remained on the conveyor belt, and then that too disappeared as the conveyor pulled it out of sight. Then the conveyor creaked to a halt, and the bloody pillar that had finally put an end to the Mastermind slowed and stopped.

As Kyoko listened over the sounds of Hina's soft sobs, she realized she could not hear anything else. The school had stopped. There was no hum of electricity, no whoosh of air moving through ventilation tunnels. The place was now as dead as most of those that had once inhabited it.

"Guess Junko was telling the truth about the dead man's switch," Celeste murmured beside her.

Kyoko nodded. "We should gather all the supplies we can, see if we can access any of the areas we haven't been able to before, and then… open the front door."

Celeste nodded back and gently grabbed Kyoko's gloved hand with her own. "Whatever happens…" she trailed off, unsure of herself.

"We'll stick together," Kyoko said, loud enough for the others to hear. "All of us."

Everyone nodded in agreement, even Byakuya. They somberly made their way out of the trial room, never to return.

…

Several years and many hardships later, Kyoko still lives. She takes a close interest in a virtual reality project Makoto designs to help rehabilitate some of those who succumbed to Junko's influence.

Kyoko continues to step up and take charge, and despite Makoto's naive encouragement to trust in the despairing individuals, she insists on taking every measure to keep the project secure. While thoroughly patting down the despairing individuals, she finds an electronic device of some kind in the pocket of one Izuru Kamakura. She confiscates it, despite his protests, and she subdues him with the help of other security guards when his protests turn violent.

Thanks in part to her efforts, Makoto's rehabilitation program is eventually proven successful, and it spreads across the world. By the time Kyoko is an old lady, the world has mostly returned to normal, albeit a more humble normal. With so many dead, abandoned structures are the norm, and most of the world's historical sites and artifacts were defaced or destroyed. But farms grow food, pipes carry water, and, most importantly, the young express hope for their future.

Kyoko eventually passes on content, and is finally buried in a graveyard built near a certain derelict high school beside thirteen other graves arranged in a circle. There is space within the circle for two more graves, for a total of sixteen, but in that space is instead a monument of stone carved with historical information about what happened at this place so long ago. Future families take their children to see the site where the Ultimate Despair responsible for so much destruction finally met her end at the hands of a talented band of amnesiac high school students.
A/N: Thought I'd come back to give this fic a proper ending, albeit a quick one.