This story is a sequel to Starcraft: Warriors of Purity
A thousand years have passed since the Battle of the Void against the renegade Xel'naga Amon. Equestria has entered an age of advanced technology and space exploration. The Protoss live alongside the Ponies and the Alicorns are having to learn how to make a universe from scratch.
Twilight has founded a research institute and named it Sphere 211. The facility has a simulator that has an artificial universe contained within.
With the discovery of a magical science called Symbology, Sphere has been working alongside the denizens of the Eternal Sphere to research this new subject.
However, a mysterious threat has arisen that threatens not only the Eternal Sphere, but possibly Equestria as well. The key to stopping this threat may lie with three young humans who have been given strange symbological powers.
The strangest part is that one of the three humans does not belong in the Eternal Sphere.
MLP:FIM belongs to Lauren Faust and Hasbro
Starcraft belongs to Blizzard Entertainment
Star Ocean: Till the End of Time belongs to Square Enix