This story is a sequel to Metroid Equis

With the culmination of events on the BSL Research Station, Samus Aran is finally able to come back to Equestria, Planet Equis; to come back home. Much has changed in her absence, but it is still the friendly, peaceful, welcoming planet and nation that she left behind two and a half years prior. With the Space Pirate threat neutralized and the secret, illegal Metroid militarization programs destroyed, it appears that Samus can finally take another massive breather with her friends and enjoy some well-deserved rest, recovery, and relaxation. The galaxy is finally at peace.

At least... for a short while.

A new enemy, one much closer to home, soon rears its head, threatening all of Equestria and Equis with complete and utter annihilation. Their mission: revenge. Samus will fight with all of her being alongside her allies against an enemy who would like nothing more than to see all that she holds dear, including her home planet, completely razed. In so doing, her cunning, ever determined enemies unleash a weapon so unexpected, so eerily familiar yet horrifically foreign that even Samus herself just might prefer the late Ridley or the SA-X...

Editing Team: Random_Dragon; ToxiClay

The Metroid Timeline/Chronology (confirmed by Nintendo) can be found here.

Canon Considerations
MLP-FiM: Up to AND including "Magical Mystery Cure." (Seasons 1, 2, and 3)
Metroid Series: Everything up to AND including Metroid Fusion (Including original mangas. See official timeline above). So, effectively everything.

In a world where the movement of the sun and moon is down to the whims of alicorn princesses, other ways must be used to keep track of time. High up in the mountain above Canterlot, there lies an old abbey, home to the Order of the Time Turners, a monastic community of ponies founded by Starswirl the Bearded, who follow a strict timetable of daily duties to regulate the length of day and night. After following the same routine for over seven hundred years, things are about to change.

A tale of Equestria from the time before Luna’s exile, told by Doctor Hooves, with further commentary by Twilight Sparkle and the Cutie Mark Crusaders.

A tough week for the Princess of Friendship has ended with an extended stay in Canterlot to repair broken friendships while also successfully getting Moondancer to embrace it again.

But as Twilight and Spike head home to settle in for a long night's rest, a sudden realization hits Twilight like a sack of hardcover books, leaving her utterly distraught and Spike as the only one capable of consoling her.

If he can, that is...

Although still a novice flier, Twilight has begun to feel comfortable in the sky. But when Rainbow Dash asks her to enter a flying pairs competition with her, she believes that her inexperience will only hinder her friend's chances of winning. Twilight's misgivings deepen when Rainbow learns that two old rivals will be competing as well, and her desire to win begins to drive a wedge between them. Full of doubt of her own abilities and anger toward Rainbow's fierce ambition to beat the others, will Twilight overcome these obstacles and compete with her friend, or will she quit the competition altogether?

This story was accepted by The Goodfic Bin! If you haven't been there, why not check them out once you're done here for some other great stories?

A diplomatic crisis arises between Equestria and the small, poor kingdom of Tarandroland, ancestral home of the reindeer. Celestia and Luna agree that it is time Luna takes a more active hand in foreign relations again, and Luna brings Twilight with her as someone she actually trusts and can talk to. But the mission turns out to be much more than political discussions - if scheming unicorn courtiers, unfriendly surly reindeer, bloodthirsty pirates, ancient sorcery and dangerous monsters weren't enough, our heroines must deal with something old - older than Luna. And is Luna really ready for diplomatic action, will Twilight learn to use a fan properly, and exactly how wrong are Spike's superhero comics about reindeer mythology?

Now has a TV tropes page

This story is a sequel to Twilight Hears The Narrator

After her odd encounter with the mysterious entity, Twilight has grown rather accustomed to living with the voice of a narrator following her life. Although she still doesn't understand his presence, she has begun to accept him as a friend. But the confusion only grows, as the Narrator finds himself following the stories of other ponies. And Twilight will soon learn that she is not the only one who can hear the voice of the handsome, talented, witty, charming, manly gentlecolt yours truly!

Bringing a lost empire into the modern age is stressful enough, but for a pair of young lovers, the weight can be difficult to bear. Fortunately, their love is stronger than ever. Their vows to one another the solid foundation of their marriage. There is nothing he wouldn't do to protect her from harm, nothing he wouldn't do to show his love. But, whether he is Captain of the Guard or Prince of the Crystal Empire, Shining Armor is her stallion, first and foremost. Her beloved. For the one who captured her heart, Princess Cadence will protect him from that which would harm his spirit—whether he knows it or not.

Editing and prereading done by The Albinocorn, Bad_Seed_72, Foals Errand, Meridian Prime, and Zodiacspear

Artwork originally done by Silfoe/RoyalSketchbook and used with permission.

It's been ten years since Rainbow Dash's father disappeared in a wild, fierce thunderstorm. When the same strange storm hits Ponyville, Rainbow Dash does as much as she can to try and stop it from happening again.

But magic has a strange habit of making things reappear, opening old wounds that could change Rainbow Dash's life forever.

In a remote corner of the Solana Galaxy lies a backwater planet called Veldin. Nothing important ever happens there. Nothing exciting, either. Ratchet, a Lombax with no idea of his origins, is beginning to grow bored with his life, and dreams of excitement. He wishes on a falling star for some excitement to find its way into his life.

The falling star answers by crashing into his home in the form of a basket carrying a tiny creature with a horn, a pair of wings, and four hooves. The name on the basket reads "Twilight Sparkle".
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Part of the PWNY-verse.

Edit: Now with cover art by the amazing G_Haze
Video Consultant/Technician: m2pt5 (he provides the infobot videos and similar.)

Edit: Game Timeline
Ratchet and Clank: Done
Going Commando: Done
Up Your Arsenal: Done
Deadlocked: Done.
Size Matters: Done.
Tools of Destruction: Done.
Quest for Booty: Done.
Crack in Time: Done.
All 4 One: Done.
Into the Nexus: Done.