Top Five Favourites - Twilight Sparkle

Solitary Locust Twilight casts a spell that leaves her in an alien body, facing a mob of angry ponies... by nodamnbrakes 110,038 words · 2,973 · 127
I'll Always be Here for You After Rainbow finds Scootaloo trudging beneath her house in a vicious snowstorm, she takes her in, only to discover something shocking. by The Abyss 92,035 words · 4,161 · 179
The Quiet Place Twilight fights against sinister manipulations, struggling to overcome a deep-seated darkness within. As she battles to preserve everything she cares about, she will sacrifice anything necessary to succeed. But the price of victory may be herself. by Aynine 400,658 words · 870 · 81
The Road Not Taken Twilight has spent her adult life keeping Equestria safe. While her friends found careers, family, and love, she has spent her time searching for ways to defend them all. Resentment now rules her heart, and somepony has to get through to her. by levarien 222,383 words · 336 · 29
Fillystata At a fair held in the town of Dappleshore, Twilight stumbles upon something from her family's past and is drawn to investigate. But will she succumb to its sinister influence, and can Trixie and Luna set their differences aside to help her? by adcoon 36,992 words · 156 · 17

Just a few of my many favourite stories on this site.

Top Five Favourites - Princess Luna/Princess Celestia

All for One - One for Luna A strange condition has Twilight courting death in the wake of her battle with Tirek. Now her life depends on Luna, and both lives will be affected. Hopefully for the best. by Wodahseht 22,453 words · 754 · 19
Dark Paradise: the TwiLuna Group Collab 100-500 word prompt-based minifics from the TwiLuna group. Contains copious amounts of adorkableness. by Habanc 94,369 words · 376 · 28
Nightshade Luna tries to forget her past one night in the library and a surprise encounter with a lavender unicorn changes everything. by Selene Bright 8,141 words · 246 · 15
Taking Off the Masks Princess Celestia and Twilight Sparkle have a private meeting during the Royal Nightmare Night Party. by Fuzzyfurvert 3,387 words · 858 · 22
Twilight's Sun, Celestia's Stars Random short stories inspired by prompts from the Twilestia is Bestia group by JKinsley 9,744 words · 178 · 11

Just a few of my many favourite stories on this site.

Even Changlings Wear Masks Chrysalis, now queen of an extinct race, must go to the nearest town, Ponyville, to gather love and rebuild her race. But she never expected the Element of Magic to take her in voluntary. What will come out of this friendship and need to feed? by watermane2000 5,221 words · 131 · 11
Running away Running, it's all Chrysalis has ever done since she was born. Running from her emotions, from her heritage, from Celestia, and now she's on the run again, but this time is different. Twilight Sparkle doesn't give up so easily. by AlphaRidley 9,466 words · 407 · 21
Molded to Love They say beauty is in the eye of the beholder, but what if all who behold you see naught but a monster? Given the chance, can this conception change? Sometimes, it just takes one person to reach out...and help. by Radiant Dawn 46,099 words · 751 · 18
How the Sunset Sparkles Sunset Shimmer moves to Ponyville under the supervision of Twilight Sparkle, and begins to develop feelings for the new princess. Can love triumph over distrust, wrath, ambition and Sunset's past? by Scipio Smith 92,180 words · 768 · 40
Long Road to Friendship As punishment for her crimes, the Elements have cursed Sunset Shimmer to do favors for anyone who asks. Lucky her. And then there's that other Twilight Sparkle she keeps running into... by Albi 213,109 words · 3,599 · 86