In July of 1996, an aggressive alien species arrived at planet Earth, intent on wiping it clean of life and scavenging all resources on it. When the planet's inhabitants stood together to combat them, they drove the invaders back. 20 years after the first attack, they came back, now with more powerful weapons and ships. But like the first time, Humanity triumphed over the alien threat, thanks to the help of another extraterrestrial race.
Now, another two decades after the second attack, the Harvesters strike once more. But not at Earth, instead at a more primitive world, one populated by colorful, sentient equines that can use magic. Now, with the help of several other species victimized by the invaders, a coalition force races against time to stop another world from suffering the same fate Earth had avoided.
{Note: The story is set after ID4 2 (Resurgence) and set at around the latter part of season six, a few episodes before "To Where and Back Again", just to clarify where we are chronologically. Also, while this is set before the MLP movie and later seasons, all of the locations and characters from them are still existent in the story's continuity.}
Independence Day, Independence Day: Resurgence, and other related trademarks are the property of 20th Century Fox Co. My Little Pony: Friendship is Magic is owned by Hasbro.