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The Masks We Wear seem to be heading this way, though unlike in canon the Fire Nation doesn't seem to have any intention of actually burning the continent down.
Lex Luthor grants Lois Lane an interview in Lex Luthor Triumphant 8 months after Superman vanished without a trace. We're told in 12 agonizing chapters how Superman is being dissected for science and profit, how his Fortress of Solitud is breached and seized, how Batman miscalculated Luthor's genius, how Wonder Woman and the JLA are duped into fatal scenarios and how, at the end, Lex Luthor ushers humanity into a golden age thanks to all the magic and science he took from the heroes.
The Pony POV Series has the Alternate Universe "Epilogue", which shows what would have happened had Discord succeeded in defeating the Mane Six. To say that it's a Crapsack World would a vast understatement. It's explored in more detail during the Dark World Arc of Season 6.
In Game Theory, although this isn't actually a bad thing, due to the nature of the story. Precia succeeds in reviving Alicia and dupes the TSAB into believing she is dead.
The Axis Powers Hetalia fic Human Curiosity largely takes place about a hundred years after the villains win. The secretive HCS kidnapped most of the Nations, subjecting them over time in increasingly atrocious experiments. Many of the remaining Nations had given them up for dead.
In one of the most shocking twists in the entire story, The winner of Total Drama Stranded was none other than local Jerkass Calvin, though he was considered the better option when two of his fellow finalists were Keith and Chelsea.