The star system Omega Centauri was just another oddity on a map to scientists in the not too distant future. However when they found the star was orbiting an earth-sized, earth-like planet instead of a black hole as its motion had suggested, a mission was scrambled to investigate this most unusual of celestial behaviors.

Hamstrung by politics, and nearly crippled before it began, the 'Lone Ranger' mission was reduced to just one crew member and left to his own devices.

These are the logs of Arrow 18 and its lone commander. This information is classified TOP SECRET by the Global Space Agency.

Do NOT tell the princess.

Eighty years after the events of The Dread Chitin, Equestria is a radically different place. The arcane science of the late Duran Thirk and the information found on the Star League library core have combined to catapult the nation's science ahead by hundreds of years.

Now, facing the possible aggression of a completely unknown alien power, Twilight Sparkle and her friends have to gather together once more, leading a crew of the best ponies they could assemble in a voyage outside their own star system. They seek to learn about their potential foe, to explore the galaxy around them, and possibly find allies and friends to stand alongside them. Who knows what they will actually find?

Twilight Sparkle never was a Unicorn and she didn't even know it.
What happens when her true heritage comes to light? Will she willingly embrace it? Or will she be forced to?

Beware of spoilers in the comments!

Edited by uTTerAbsurdity, Zervziel, Stormwatch and Gwenio

Cover art by the talented Cartoonlion and colored by the equally talented Stormwatch, original can be found here

Click here for the Tvtropes page

This story is a sequel to Project: Sunflower

After the events of Project: Sunflower, Erin Olsen has returned to Ponyville, happy to pursue her studies in magic. After everything that happened the year before, she's looking forward to spending her days studying and having fun with her friends.

Meanwhile, on the newly discovered world of Harmony, humans and ponies work together to study this strange new world. However, their arrival causes something ancient to begin stirring. Something that may end up changing everything.

Erin will need all of her courage, all of her cleverness and, of course, all of her friends to see herself through what happens next.

Cover art by Valkyrie-Girl
Editing provided by:
Brilliant Point, Coandco, Ekevoo, Ludicrous Lycan, Merlos the Mad and Razalon the Lizardman.

It is the year 2038, and the Earth is slowly being consumed by a space-borne monstrosity dubbed the Black Tide, which is using nanotechnology to remake the planet into something hideously alien.

Erin Olsen works for Project Harmonics, humanity's last-ditch effort to find a new world before the Tide can wipe them out. But when that world is found, and it turns out to be occupied, Erin will need to find the courage to face the unknown in order to save the inhabitants of both worlds.

(Many thanks to Easteu for the fantastic cover image for this story!)

Now with its own TV Tropes page

There is now a follow-up to this story: Sunflower - Side Projects
Sequel: Project Sunflower: Harmony

This story is a sequel to Kind Hearts & Coronets

“My name’s Daisy Jo Martinez. I was born – or so my birth certificate says – on March 30, 2012. I’m married with two kids, my husband’s a Naval officer. I’m originally from a town just outside of DC called Winchester, Virginia – apple capital of America, yay, go me. I’m a Republican – that tends to shock a lot of people – and I’m a practicing Catholic – and that tends to shock more people than the first, and like I said, I’m married – I think people start passing out at that point. I've lived a happy, charmed life and I’m proud to be an American.

“And as you can also see, I’m a pony. Well, physically anyway."

The first main story of The All-American Girl Saga.
TV Tropes page
Selected as "Humans Aren't Bastards" Group's Mods' Choice July 2013