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Simple tThis takes place in the distant future in an Equestria void of Magic clearly the fallout from the actions of a villian or catastrophic event. We've already seen villians like Starlight, Discord, and The League of Villians warp time and space this is par for the course.
 
The Mane 6, the Princess, and everyone else are likely all long gone or at least out of commission. Nothing last forever.