This follows the events described in the Cutie Mark Chronicles, with one small change: The Sonic Rainboom doesn't happen like it was supposed to. Six destinies fail to start. But when one door closes, another one opens.

Cover Art by Inspired_Light

This is supposed to be close to Canon, but since history is altered and the characters don't experience many of the events that make them who they are in the show I'm listing this as alternate universe (does that make sense?)
For the same reason I'm listing the OC tag, even though the OCs are the mane 6 living different lives.

Nopony dies, nopony suffers permanent psychological scarring, and no irrational whirlwind romances happen.
If I have inadvertently included somepony's OC I apologize.

Warning: contents may contain Existentialism. The facility used also handles peanut based products and wheat gluten.

After his defeat at the hooves of the Bearers of the Elements of Harmony the stony figure of Discord was dragged far, far, far out of Ponyville where the good ponies could eventually forget the name of their tormentor...

...again.

But, it seems, as the months have passed some creature in Ponyville has not been able to put aside what had happened. Now, that creature approaches, and it seems as though he'd like a word with the immortal spirit of chaos...

A snapshot of the millennial lives of a young Celestia and Luna, as they prepare to do battle with Discord and fight to keep the Harmony they have only so recently mastered, and learn lessons they will struggle with all their days. In a journey that has no end, what matters most is who walks beside you.

The royal court of Canterlot welcomes its newest member with open forelegs: the human philosopher Voltaire, from Earth.

On Earth, Voltaire is known as the greatest enemy of tyranny in the history of literature, and a legend in his own mind.

On Equestria, the court betting pool is giving him a week before the Princess banishes him to the Moon.

Note: This story doesn't have sequels per se, but there are a couple of short follow-ups set in the present day ("Parade Coverage" and "Secret Histories"), and a prequel of sorts in "At the Inn of the Prancing Pony".

TV Tropes page.

This story is a sequel to The Dresden Fillies: Strange Friends

Almost a year has gone by for Harry Dresden since he left Equestria. He'd have written, but between saving his newly discovered brother and destroying a scourge of vampires he's been a little busy. Then out of the blue he receives a strange letter from Twilight asking him to return. With no cases at the moment he eagerly accepts, but his friends aren't the only ponies expecting him. There's been a lot of rumors since his last visit and some ponies aren't too keen on seeing him come back.

A sequel to The Dresden Fillies: Strange Friends.

Applejack had long since taken the Hearth’s Warming Eve story for fact. When she and Fluttershy find themselves in an untamed wilderness, they’ll learn that not all history is preserved. In their struggle to find their way home, the two will unearth secrets unknown to any living being, pony or otherwise.

Half a world away, the others have problems of their own. As Rainbow Dash struggles to discover exactly what she is to her oldest friend, Twilight must face the stunning truth about her long-time mentor.

In the end, what is lost, and what is found?

Once upon a time there was a little pink pony who lived on a rock farm and wanted nothing more than to be happy.

There's been another sighting of the mysterious Mare Do Well...but this time, all of Rainbow Dash's friends plead ignorance, insisting that they've put aside their costumes for good. Rainbow Dash is determined to uncover the masked mare's true identity before she's humiliated yet again, but this time around, the vigilante seems especially interested in her as well. Will Rainbow Dash be able to solve the mystery before the culprit takes the hoax too far? Or is she in danger of losing not only her mind, but her heart?

Featured on Equestria Daily.

A simple afternoon spent modifying a dress at Carousel Boutique leads to two ponies accidentally discovering that they have more in common than was once believed.

Why does Equestria need a guided missile cruiser?
What made the US Navy sell it so cheaply?
How could Princess Celestia think this was a good idea?
Learn the true story behind one of the most controversial - and secret - arms deals in history.