After discovering that Cadence is not who she appears to be, Twilight is sent to another world entirely by the disguised Changeling Queen to avoid her plan being disrupted.
When Twilight lands, she discovers that not only have Spike, Owlowiscious and Peewee followed her, but that they've arrived in a world where the main sentient species is human.
There's still a place where they teach magic, though.
Crossover with Harry Potter. Twilight will be effectively taking the role of Hermione.

I've marked this story as cancelled to reflect the unlikelihood of it continuing. If I do come back to it I'll revert that.

Going up to the roof for some fresh air after pulling and all-nighter, our "hero" makes the mistake of closing his eyes for a bit.
When he opens them again, he is no longer on the rooftop in Copenhagen he was expecting to be on... no he's somewhere very different, and extremely unfamiliar.
How will he react? How will the ponies react? Nothing is certain, except for one thing...

He never asked for this.

This story takes place about 8'ish years after the second season of MLP:FiM, the language of Equestria does not match any earth languages (that the main character knows of at least), and the human in question knows nothing of these ponies or the world of Equestria.
He emerges into Equestria on the roof of a building in Manehattan, not the Everfree, not Ponyville and certainly not one of the princesses' bedrooms in Canterlot Castle.

Oh! Spoilers in the comments and all that jazz, not gonna go into a whole spiel about it.

Cloudsdale. Bastion of the Pegasi, linchpin of weather control, home to the Wonderbolts. A magnificent metropolis gracing the skies of Equestria. So what happens when an oblivious human starts stumbling around in a sailplane? As they say, hilarity ensues.

Notice: This is a Stellaris Invicta/MLP: FiM crossover. For more information on Stellaris Invicta by the Templin Institute, visit https://www.youtube.com/playlist?list=PL4YabFfWSaelXgXfV6T2ISJ5UN7Nci3qA. Its lore will be essential in understanding a considerable part of this story even though not all of it will be canonical.

After the destruction of the Tyrum homeworld, galactic powers began to turn against the GTU in disgust of its violation of the Homestead Treaty. When embassies were shut down and the Star Concorde began to close trade routes with the GTU in an effort to starve it out, the Union was forced to take drastic measures to ensure its survival.

Follow Admiral Johnson as he and his crew aboard the U.S.S. Archer as they search for the solution to the GTU's intergalactic relations and uncover more than they bargained for. Will the GTU follow a diplomatic or warfaring path? How will human and ponykind see each other? And, most importantly, what is the true history of the universe?

A botched viewing spell has sent Twilight Sparkle to Earth and into the care of Kyle West. Having been turned into a human, the local species, Twilight Sparkle relies on her host to help her as she finds a way back to Equestria. And, in the meantime, she decides to learn about humans and the world they live in; the good, the bad, the beautiful and the ugly.

Now With TV Tropes Page!