It has been said that nothing lived on the land of Equestria before the three pony tribes became one and settled there. It has also been said that ponies cultivated and created Equestria with their own hooves.

This is wrong.

Thousands of years after the cultivation of Equestria, Zachery a human soldier whose sole task is to protect the human race is allowed to take a leave of absence. It has been thousands of years since the last pony sighting and being in constant state of wartime is deemed too stressful for both the militants and civilians involved.
While this is happening, Twilight Sparkle an alicorn princess of Equestria unearths information on a lost race that lived in Equestia thousands of years ago. Unknowingly to the both her and Zachery, she slowly sets into motion the events that will cause the two species that had violently divided to once again meet. For better or for worse.