What if Nanoha never became the White Devil?

Twilight Sparkle, as everypony knows, is a magical pony by nature and profession. However, even she is confused when she encounters a mysterious ferret and an equally mysterious jewel. Forced into conflict by a monster attack, Twilight releases the power of the jewel, summoning the device known as Raising Heart.
Tasked with the retreival of a set of mysterious artifacts known as the Jewel Seeds, Twilight and her friends face an entirely new set of challenges. Unbeknownst to them, however, forces outside of Equestria are moving to claim the very same artifacts they now hunt.

A crossover with Magical Girl Lyrical Nanoha, with an equine twist!
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A sequel has begun. Go Here For Magical Pony Lyrical Twilight A's

Magical Pony Lyrical Twilight by PurpleProse is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported License.

For a thousand years, the Code of Harmony has ruled Equestria, and the Code of Dissonance has sabotaged its works at every turn. Now the war for control over the land will come to a head, and one unicorn's decision may decide the fate of all.

For though she does not know it, Twilight Sparkle is the shining example of the Code of Harmony. Her teacher, Princess Celestia is Harmony's most powerful master and she knows her enemies are hatching a plan that threatens to cast down the Harmony of her throne and all she has sacrificed to create.

What she does not know is her foe seeks a new Apprentice to turn to his dark ways. A unicorn with seemingly limitless potential for magic, whose thirst for knowledge may yet lead her down a dark path, who is known to be such a faithful student of magic, eagerly seeking the truth no matter how forbidden it might be...

Sequel: Code of Harmony

This story is a sequel to The Code's Apprentice

Sequel To : The Code's Apprentice

The land of Equestria has been changed forever.

New monarchs sit upon the thrones of the Sun and Moon, the once almighty power of Harmony overturned to make way for a new Diarchy of Balance. Political unrest and turmoil have engulfed the land, and at the very center of it all, Princess Celestia - renamed Tia Sunbeam - seeks atonement for the crimes she committed in the name of Eternal Harmony.

With much of her power sealed away, Tia must live amidst the citizens of Ponyville as the world changes all around them. As Ponyville works to rebuild following the struggle between student and teacher, they must cope with the edicts of a new government determined to bring equality to all creatures, beliefs, and ways of life - even those that were long since banished to the dark places of the world.

Tia Sunbeam will struggle with her own deeply held convictions on the way the world should be, versus the way it will now become. She will face a truth she has long since denied, and realize the true meaning of Harmony. And perhaps, most importantly of all... She must make some Friends.

Cover art by SinSays at http://sinsays.tumblr.com/ - Go spend some money with her! :D
Oh, and go check out my new side story - Rise - It's going to become relevant here!
(character tags are not comprehensive! Some are being kept secret! ;3)

After the Changeling invasion, Celestia and Luna make the decision to have Twilight investigate the Elements of Harmony and solve the mystery of their power.

A thousand years later, Rainbow Dash awakens in a world she does not recognize. She has no idea how or why she came to be there. She does not know the language, the geography or any of the rules of this new time. She soon finds allies in Star Fall, a scholarly pegasus whose Talent is Magic, and Astrid, Star Fall's Griffin guardian. Together they set out to discover why Dash has been sent to the future, and how she might return to when she belongs.

War threatens the nations, a Nightmare stalks the shadows, and Rainbow Dash's arrival has turned her into a wild card in a deadly game that pits the law on both sides of a broken Equestria against a mysterious criminal figure, Max Cash. Yet the stakes are higher than anyone knows, for in her research Twilight Sparkle discovered a dark secret about the Elements, something that will shake the foundations of the world.

Cover image by SierraEx
Has a TvTropes page

When a lone baby draconequus happens to stumble into Cheerilee's class one day, the caring mare can't help but take it upon herself to attempt raising it.

But as time goes on, Cheerilee soon learns the risks of taking in a draconequus. Risks, that could cost the both of them, everything.

(Much loved Editor: The11thWonder, + Revision Chapters 9 & 10: Jokie155)

This story is a sequel to Our Chaotic Melancholy

Eve, a baby draconequus shunned by equestrian society, continues her ventures in the hopes of finding a path to the life she craves. A life of peace, love, and acceptance.

But the further she goes, the more she begins to question whether her dreams were ever possible. And the further her cherished world becomes, the more she begins to question her destined role as a draconequus, and a monster.

This story is a sequel to Upheaval: Breaking Point

Following the events of Breaking Point, Twilight Sparkle and her friends discover that Equestria's demise may not come from an enemy invasion, but from within. The Barrier Lands and the Heartland begin the slow and uneasy process of reuniting into a single Equestria, but this long-delayed joining is already in danger at its conception.

With Celestia's power in her grasp and her agents by her side, the wheels of Black Rose's plans for Equestria's future continue to turn. However, her brazen gamble has done more than just bring down a centuries-old barrier. Ancient powers begin to stir: the remnants of a dark period in Equestria's history, the immortal inhabitants of Celestia's homeworld, and a rising tide of darkness coming ever closer.

Daring Do seeks a favor from her sister in Ponyville. Due to buried grudges, things quickly get out of hoof. She soon finds herself on her most perilous mission yet... with her biggest fan in the world. In the midst of truth and lies, loyalty and treachery, love and hate, one thing is clear ― some family situations are stranger than fiction.

The story extends in Through the Looking-glass and What Pinkie Found There and The Daughter Doo: Honorary Cutie Mark Crusader.

Many thanks to Honey Mead and statoose for their watchful and helpful pre-reading.

Ckat_Myla and statoose (CatNStat) have started an excellent reading of TSD.