Why Haven't You Read These?

Hard Reset Twilight gives her life to stop a changeling invasion. Repeatedly. by Eakin 36,358 words · 8,208 · 134
The Sweetie Chronicles: Fragments Sweetie Belle must find Twilight by travelling through different Fanfic worlds... by Wanderer D 570,484 words · 3,340 · 70
This Platinum Crown Only one mare can claim the Platinum Crown of Canterlot. by Capn_Chryssalid 887,118 words · 1,837 · 71

Seriously, if you haven't already, read these.

Lesser Known Greatness

Days of Wasp and Spider No humans. In Equestria's past, ponies exist only to serve their creators. One such pony is accidentally released from her mental chains, but how can one mare save herself and her people if she doesn't even know she's a slave? by Luna-tic Scientist 233,572 words · 1,252 · 31
Heart of Gold, Feathers of Steel Gilda-centric retelling of "Griffon the Brush Off" by Nicknack 34,379 words · 804 · 18
The Colour You Bleed Blueblood is kidnapped, and dumped in an unfriendly neighboring country. by Kegisak 137,610 words · 470 · 8
The Traveling Tutor and the Librarian Twilight believes the new unicorn magic school teacher is a pretentious royal jerk. Green Grass thinks the town’s librarian is an interfering, arrogant brat. Can they teach each other differently before somepony gets killed, or worse, married by Georg 102,861 words · 1,228 · 38

Mane Effect An Earth Pony soldier of the far future seeks to uncover the mystery of an ancient space faring race, all the while hunting a dangerous fugitive across the galaxy. by Quillery 174,708 words · 131 · 8
Magic, and Mayhem, and... Murder? Oh my... Shawn Spencer, fake psychic detective, goes where no man has gone before. by Invictus 137,798 words · 983 · 21
My Little Chrono Triggers Are Magic Rainbow Dash and her friends travel through time to save their world from apocalyptic destruction. by Pav Feira 151,784 words · 413 · 9
My Little Denarians Harry Dresden must go to Equestria to stop an evil plot by the Order of the Blackened Denarius by Chengar Qordath 223,971 words · 1,002 · 40