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I was wondering if in your travels you had come across any fics that rewrite season 9, so that Mulder didn't leave, BUT also keep going with something that looks like the plot of season 9. Not necessarily the exact plot (since it’s bonkers), but something where Mulder and Scully have to deal with the larger Mytharc while being parents. Falling In And In by Aloysia_Virgata is the closest I’ve come to what I’m looking for. 

And just to be clear, I love fics like Terra Firma by Malibusunset and Hurricane Season by Beduini and Rah, but they aren’t quite what I’m looking for in this case. 

Thanks!!!

YES I HAVE! (Thanks for the compliments~.) I did my best sticking to this very, VERY specific niche. Some of these include Mulder left but Scully joined him later:

Mulder Doesn't Leave But the Mytharc Continues

Lapsed_Scholar's MASTERFUL fill-in series: Mulder is a stay-at-home dad during the entire events of S9 (including the cat autopsy scene.) Love this to death; and it further cemented my hatred of canonical S9, so there's that: Season 9 Rewrites and Musings - Lapsed_Scholar - The X-Files [Archive of Our Own] 

ML/ML_is_me’s (Ao3, Gossamer, DW, Invidiosa)  

Mulder is a stay-at-home dad battling the Conspiracy. Scully and their new partner get a call and drop-in from Phoebe, who is relatives with a higher-up:

1/ Project:TruthSeekers Alt Season Nine: Home Fires, Part One - ML_is_me, spookyawards_archivist - The X-Files [Archive of Our Own] Goss Gossamer | Story: "The New Truth, A Project 09x04 - Home Fires 01" by ML  

2/ Project:TruthSeekers Alt Season Nine: Home Fires, Part Two - ML_is_me, spookyawards_archivist - The X-Files [Archive of Our Own] Goss Gossamer | Story: "The New Truth, A Project 09x04 - Home Fires 02" by ML AU/INTP marvels that ISTJ tracked him down w/ Will-- Gossamer | Story: "155 Words - Thankful" by ML

@baronessblixen's short AU covers a S9 nightmare Mulder had: (53) Hate is always foolish and love is always wise on Tumblr Ao3 Just A Dream - Baroness_Blixen - The X-Files [Archive of Our Own]

@o6666666's (Ao3) 20. As we huddle together, the storm raging outside--  Untitled — 20 (tumblr.com)-- is an invasion story where Mulder and fam bunk out to escape the aliens.

jeri's (MC) fic focuses on a case Monica and Doggett bust in connection to Marita. Mulder is in the background being a stay-at-home, mentioned occasionally by Scully: Ahonis (mulderscreek.com) Goss Gossamer | Story: "Ahonis" by jeri 

@aloysiavirgata has a long series about Mulder and Scully parenting a specially-abled Will, ending with mytharc Colonization:

By Falling In and In

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Other assorted S9 fics w/ dashes of By Falling In and In are:

A Heart of Star-- Mulder has bonding moments with his growing son

Elysium-- Scully has bonding moments with her son growing up

Mulder Left, Scully Joined-- Mytharc Flavored

touchstona's epic that diverges from your idea only slightly-- Mulder is on the run; but Scully hauls Will out to him with her. The series is long and beautiful, touching on their entire relationship but mostly the wounds of S8 he has yet to address. She also reforms the entire mytharc while only using tools the show's writers gave us. Stunning work:

Part 1/ Amor Fati: Destinata (The Fated Love), Act One: Desiderium (The Longing) - touchstoneaf - The X-Files [Archive of Our Own]

Part 2/ Amor Fati: Destinata (The Fated Love), Act Two: Et Perierat et Inventus Est (The Lost and the Found) - touchstoneaf - The X-Files [Archive of Our Own]

Part 3/ Amor Fati: The Fated Love, Act Three: Tres Discendens (The Leaving of the Three) - touchstoneaf - The X-Files [Archive of Our Own]

Tess (Ao3) and Jacquie LaVa's fic covers Byers escorting Scully and Will to Mulder to Christmas. Mulder convinces her to stay: xfms.xffics.com/stillstillstill.txt Goss Gossamer | Story: "Still, Still, Still" by Tess & LaVa, Jacquie 

Tess also writes about Scully being shoved back to the FBI for resources since Mulder is on the outs. The conspiracy rages on: Gossamer | Story: "The New Truth, A Project 09x00 - Prologue, A New Beginning" by Tess

ML/ML_is_me’s (Ao3, Gossamer, DW, Invidiosa) Slightly off topic-- Scully tracks Mulder down with Will in tow: Gossamer | Story: "155 Words - Thankful" by ML

Does this count? Gillian Leigh's (MC) AU diverts from canon midway? when Mulder gets a vision from his future daughter warning against the adoption. He goes back, packs up Scully, his fam, and hers, and hides out in a civilization bunker hideout. Samantha's there, too: Visitor in the Desert (mulderscreek.com) Goss Gossamer | Story: "Visitor in the Desert" by Leigh, Gillian 

I have more; but this is long enough as it is! XDDDD

Look at them, you’d never guess they were just holding their boss at gunpoint

Scully has mulder twirling the phone chord and kicking his feet,…..

These stories are some of my all-time favorites, for a variety of reasons… Happy reading!! 

All Things Bright and Beautiful - R - By: Dlynn - 227k

Set during Season 7 as Mulder and Scully embark on their physical relationship, while Dr. Daniel still pines for Scully.  

And Death Shall Have No Dominion - NC17 - By: Jean Healms - 1011k

A long journey with our favorite duo, but with so much angst it’ll keep you coming back for more. Mythology, MSR, angst….ugh. ONE OF MY TOP FIVE FAVORITES. 

Aphrodisia - VERY NC17 - By: Kristel St. Johns

Scully’s need for control takes her and Mulder into discovering the BDSM lifestyle. Okay, I was reluctant at first… but it was in-character, and so fucking hot. Set post-Orison. Some parts are a little meh and may take some effort to suspend disbelief but for the most part, I was amazed by how much this could work. The author did a great job in researching and informing the reader. 

As - NC17 - By: Dri - 452k

Mulder and Scully are set up just as they start their relationship and have to piece together who did it, and WHY. Angst. Angst. Angst. So good. 

Blinded by White Light - NC17 - By: @dashakay - 282k

Does this really need an introduction? I’m not generally a fan of AU, but this story changed my mind and I was sucked into it from the beginning. ONE OF MY TOP FIVE FAVORITES

Dr. Scully’s School for Exceptional Boys - R - By: Prufrock’s Love

MY FAVORITE STORY. Don’t let the title fool you, this story is hardly as sappy as it may seem. It’s tragically beautiful and I would pay good money to see this made into a miniseries. I WILL NEVER SHUT UP ABOUT PRUFROCK’S LOVE. You have to read it. Post-William, and it veers… It’s been 12 years since she’s seen him. ugh. I’m haunted by this story. Basically EVERYTHING she writes is amazing. Just read everything. 

Eleventh Hour - NC17 - By: Rachel Anton - 207k

Now that my opinion of AU has been broadened by BBWL, someone suggested I read Eleventh Hour, and I’m glad I did. What a journey. Mulder has to go back in time to save Scully from her fate…but will he want to return to present? 

Erosion - NC17 - By: Annie Sewell-Jennings -  226k

Be prepared to die. This story is beautiful. The consortium force Mulder and Scully to separate, but they find a way to still see each other. 

He is the Master of his Fate, She is the Captain of her Soul - NC17 - WIP - By: Scully Likes Science

Okay, basically this story CONSUMED my soul before the revival. It’s RIDICULOUSLY long in the best way possible. Covering everything from the beginning of Season 8 to IWTB and beyond, this story shows us what CC did not. It explains her pregnancy, what happened to Mulder while he was away and what they did on the run. Buckle your seat belts; it’s a long read, but well worth it.  

Iolokus Part 1, Part 2, Part 3, Part 4 - NC17 - By: MustangSally, Rivka T

Just read it. Thank me later. Dark, dirty, but fucking amazing. If you haven’t read it, you need to…just so you can freak out with the rest of us. 

Mesabi Ferrum - NC17 - By: Zoonr 

I WILL NEVER SHUT UP ABOUT MESABI FERRUM. It is amazing. Between this and Machines of Freedom, CC had all of the ammo he needed for Seasons 10-11. William, mytharc, MSR, viruses, Doggett/Reyes and others… ONE OF MY TOP FIVE FAVORITES. 

Machines of Freedom - R - By: @amalnahurriyeh

I adore everything about this story. Set post-IWTB, it follows our agents as they figure out how to beat 2012… familiar faces reappear, and it has some of the best plot-twists around. READ IT. 

Worth Breaking - NC17 - By: Narida Law

please be aware that the correct way to replace ä, ö, ü, ß is turning them into ae, oe, ue, and ss, not just taking the dots away or typing “B”.

Otherwise you can get things like,

“Das Wetter ist sehr schwül heute.” = “The weather is very hot and humid today.”

The little cafe down the street from her apartment is loud for a Tuesday afternoon. It looks mostly the same as it did the last time she was here, seven years ago. Scully can remember that day with startling precision. She’d been rereading Breakfast at Tiffany’s and eating a too-dry sandwich. It had tasted a lot like the one she’s struggling to swallow right now. Some things never change.

Some things do change, however. In the corner where there used to be a potted plant sits a long table with a few desktop computers that customers use as they sip their coffee. Prices are a little higher. Her cell phone is smaller. It’s weird, adjusting to it all in bursts like this.

Casefiles - Fic Recs

Need just the right case to push you from UST to RST with your not so platonic work partner? Casefiles with slow burn MSR are my jam:

Early On:

Universal Invariants by @syntax6 - set over the course of a canon-parallel version of season 1 and early season 2 where Scully’s boyfriend Ethan who was cut from the pilot sticks around. One of my all time favorites.

Classic Era (or I don’t know when it’s set so I picture season 3):

This House Is Burning by Tesla - serial killer undercover case set at a ski resort.

Under Covers by skinfull- Scully goes undercover.

We’re Married Now by skinfull - married undercover with a cult.

Scary Stories by skinfull - investigating urban legends.

Homicidal Tendencies by Swikstr - crossover with Homicide: Life on the Street, but you don’t need to know that show. Scully/Other ending in MSR.

Cancer Arc Era:

The Common Fate of All Things Rare by @aloysiavirgata and Scarlet - post Never Again, filling in the blanks leading up to Momento Mori.

Omens by @lepus-arcticus - a cancer era classic.

On Untying the Endless Knot, and Other Improbable Things by secondsflat - post Demons, dealing with Mulder’s lingering flashbacks and tying back to the post lives from The Field Where I Died.

Gates of Hell by @alienqueequeg - post remission they work a cold case from Scully’s past.

Embers by @syntax6 - post remission as they explore a new relationship.

Laws of Motion by @syntax6 - sequel to Universal Invariants, set over the course of season 5.

More Than a Feeling by @sisterspooky1013 - undercover at a carnival with fake dating goodness.

You He Did Not Fail by extraordinary_ordinary - AU where Scully leaves the X-Files post-remission. Two years later their paths cross again on a case.

Post FTF:

Queen’s Gambit by Suzanne Schramm - early season 6 serial killer case.

Kinesthesia by Amy - early season 6 undercover at a fairground.

Quietus by Allison Johnson - early season 6 follow up to Paper Hearts.

Suspicious Minds by skinfull - undercover as a couple at a drug compound.

Lesser Evils by Hannah Mason - fun dramatic, tropey Scully is kidnapped, will Mulder save her in time?

Cold Cuts by Joann Humby - serial killer case.

No Earthly Means by Circe Invidiosa aka @invidiosa - season 6 follow up to Gender Bender.

March by bluesamutra - post Tithonus

Speechless by Anjou - post Tithonus

Heart’s Desire by @malibusunset-xf-blog - post Two Fathers/One Son. My favorite Scully/Other fic - ends in MSR, but it’s probably the only fic where I’ve thought that Mulder might be the wrong choice.

Overnight Sensation by @syntax6 - post Two Fathers/One Son case in Boston. A favorite.

Arizona Highways by Fialka - post Two Father/One Son, dealing with the discovery of more Emilys. A classic.

Ensky by ViXen - late season 6 serial killer case.

Lacuna by @aloysiavirgata - post Milagro, Scully/Other ending in MSR.

Amish Country by Lolabeegood - serial rapist case within an Amish case. Undercover married, a favorite.

Mind Games by Spider - featuring profiler!Mulder. Warning for very disturbing case details.

Margaritas by agoodwoman - post The Unnatural morning after.

Watching Wall by amerella - post The Sixth Extinction: Amor Fati

Petrichor by @aloysiavirgata - post The Sixth Extinction: Amor Fati

Damsels by @sisterspooky1013 - Scully goes undercover at a strip club.

Hallowed by @gaycrouton - married undercover in a cult.

Parabiosis by penumbra - set across season 7, an all time favorite.

Wing and Prayer by Revely - post En Ami, investigating a miracle.

Seeds of Synchronicity by mountainphile - follow up to Aubrey 6 years later.

Late Era:

Mobius by L.A. Ward - while Mulder is missing a missing scientist’s case leads Scully to Mulder in an unexpected way.

Gerber Daisies by DiscordantWords - set during the back half of season 8, case involving Charlie Scully.

All the Mulders and One of the Byers by Alloway In the alien-controlled post-Project future, the bond between Scully and Mulder evolves into a strange and bittersweet romance. / In the post-Project future, Mulder enlists the help of a much-changed former Gunman.

Ask About the Weather by Rachel Howard Post-colonization, MS.

Blinded by White Light and Open to White by @dashakay What are we, but the sum of our memories? /  We shall see the sky sparkling with diamonds.

Burning the Maps and A Candle for Katherine by Marasmus An ending, of sorts.

Cellphone by Marasmus A conversation. A game. All is not what it seems.

Drive, He Said by Jennifer Stoy Where do you go when there’s nowhere left?

A Dull Rumour of Some Other War by Stephen Greenwood December 21, 2012. Doomsday. But nothing happened.

Everybody Having a Good Time by Sab Haven’t seen you in quite a while, / You were down the hold, just passing time. Last time we met it was a low-lit room / We were as close together as a bride and groom. We ate the food, we drank the wine, / Everybody having a good time / Except you, You were talking about the end of the world.In my dreams, I was drowning in sorrows / Till my sorrows, they learned to swim. Surrounding me, going down on me, / Spilling over the brim. Waves of regret, waves of joy / I reached out for the one I tried to destroy / And you, you said you’d wait until the end of the world. - U2, “Until the End of the World”

Journal 1999 and Journal 2000 by MD1016 The first three months of post-colonization Earth from Scully’s point of view. / The struggle continues.

Letters of Transit by Loch Ness It’s 1999– The Date has come and gone, the “Project” is underway and deadly bees have been unleashed on North America. With the world coming apart and people scrambling to get away from the swarm. Mulder faces fateful decisions about his own role in events to come– and about Scully.

North of Zero by @slippinmickeys The bombs have fallen. The aliens have come. What’s next?

Operation Clean House by Sarah Segretti A lost scene from an unfilmed episode. Colonization looms. A stolen moment on the tarmac. In medias res.

Opsis by Punk (@seepunkrun) Apocalypse doesn’t always mean the end of the world.

Patient by Gwendolyn Scully is a Prisoner of War, a woman without a past or a future, until an old friend arrives.

Portions of Eternity by Dianora In the post-colonization world, a very changed Mulder and Scully struggle to find their way back to each other - both physically and emotionally.

A Show of Strength by Meredith Post-colonization story, alternate universe. Perception, loyalty, and identity are called into question as survivors face new and more threatening challenges.

Tangible by Blueswirl and Meredith Sometimes, to have anything, one must be willing to risk everything.

Timber by nevdull The stars are projectors.

The Time After by Amperage My father, Fox William Mulder, was born in a time before. When there were rules and laws. Before the Visitors…

Umbra Reverie series by 6hoursgirl (@sixhours​) Mulder and Scully find their son, setting off a series of events that force them to confront some painful and terrifying truths.

Vestigy by Lisby ‘Vestigy’ takes place in the near future, after the planned invasion of the planet, focusing on the radically altered existence of Walter Skinner.

White Ink by Bonetree In December 2012, a battered Mulder, Scully and William know there’s much more at stake than just the end of the world.

Windows by Jesemie’s Evil Twin Character death.  End of the world.  Unresolved M/Sc *and*  Sc/K tension. Oddness.

wire sprint by Jesemie’s Evil Twin “How can I see the future if it didn’t already exist?” - Clyde Bruckman

In the wake of the 30th Anniversary, I combed through my fic pile and pulled up some fics dealing with the Pilot. (Don't worry about the AUs-- I'll stick them in another list later for the fun of it.)

Loose chronological order below~

Melymbrosia's Untold

""Double-blinds, triple-blinds, codes instead of names, codes instead of the details of procedures or drugs. Dr. Charne-Sayre has assured her bosses that the lab assistants will have no idea what projects and experiments produced the blood tests and organic compounds they're analyzing, and that this will not, in fact, even seem strange to them. The old men ask if it can't all be done by computer instead; they have what Bonita Charne-Sayre privately considers a charmingly naive faith in computer security, possibly because they think of it as half magic and half obfuscation. No, she says, and again no, and finally they give in. Medical research, it seems, requires a larger budget and a more select staff than mere conspiracy.""

The horrendous experiences of the Pilot abductees.

@discordantwords‘s (Ao3) Cataplexy

""It took him a moment to realize that he was awake, that he could move, and he did so in a rush, sitting up and shucking off of the blankets. His heart thudded in his chest. He lifted one hand and then the other, clenched his fist, looked at his fingers.

Across the room, in the second bed, his father mumbled something in his sleep, turned over, began to snore.""

Billy Miles's dad hopes his son will snap out of it, willingly covering up all evidence to protect his son.

zulu's First Sight

""She remembered that there was at least one agent who pursued unusual cases. She'd heard about him from...whom? Tom Colton, in their last year at the Academy. He'd told her about the agent who chased unexplained phenomena the way the rest of them tracked drug shipments and illegal weapons.

"He's a real ghostbuster, apparently," Tom had said, laughing. A group had gathered around him, ready to hear the sort of case study their instructors didn't see fit to assign to them officially. "They say he's rather--spooky. Spooky Mulder, chasing after aliens with a badge and a gun. You know you've gone bonkers when, you know what I mean?"

Dana smiled with the others, but the idea intrigued her. "And they let him?" she asked.

"The way I hear it, it's the only way they can keep him happy enough to do their V.C.U. profiling for them." Tom snorted. "They say his profile caught Monty Props almost single-handedly.""

Scully's boredom is eased with her thrilling new assignment to the notorious Fox Mulder. Although Melissa is her only familial support, she tries not to let it dampen her spirits-- as yet unaware that Mulder is on a campaign to figure out who she is and why they were partnered.

season 6 | tw: grief | general audiences

It keeps replaying in your mind.

Losing Mulder in the flames, the sheriff finding you as you desperately shouted your partner’s name into the smoke, pulling you out of the warehouse as a wave of impossibly heavy heat slammed into your back. The blinding light of the search helicopter, the hands of firefighters pulling you up and away. The second explosion. The burning debris tearing through the sky. Sitting in the back of an ambulance, numb, numb, numb.

You were released from the hospital this morning, and headed straight to the police station. They told you the search teams had found bodies; if Mulder was anywhere, he’d be here.

The morgue.

A man steps through the door to your left. “Agent Scully?”

Oh, no. No, please, not yet. You’re not ready. You want to turn and run away, away from these answers you don’t want, away from all this.

Away from Mulder’s body.

“Agent Scully, are you - ”

“I… I need to get some air. Sorry.”

You get to your feet and stumble out of the waiting room, down the corridor and through the doors. It’s sunny outside. It shouldn’t be. Mulder is dead.

Your eyes start to well up again. You force them shut.

You lean back against the brick wall and try to take deep, steadying breaths past the lump in your throat. This isn’t happening. This can’t be happening.

“Scully?”

You hear him, and for a moment you wonder if his spirit is here, talking to you, giving you the strength to head back inside. And then you remember that Mulder would’ve laughed at you for even suggesting such a possibility – ghosts aren’t real, right, Scully? – and the tears prickling behind your eyelids start to fall.

“Scully.”

He’s not real. You know he’s not real. But you open your eyes anyway, to prove it.

He’s stood on the drivers’ side of a car, door half open, wearing a jacket too big for him and a pair of jeans that aren’t quite long enough. He looks tired, eyes red and stubble scattering his cheeks. He looks… real. He sounds real. Then he’s running to you, and he – oh, thank God – he feels real. He feels like the only real thing in the world.

He’s holding you, gripping your shoulders so tightly it hurts, kissing your forehead over and over, whispering words you can’t quite make out, but it’s not enough, it’s not enough. You grab onto his jacket and pull him down and his hands slide down to your back – his place on your back – and… oh.

His lips are on yours and it’s everything you could’ve ever dreamed of. He’s warm, and soft, and tastes exactly how you’d imagined, and you’re going dizzy from the way he’s touching you, impossibly gentle but with a passion and need you feel coursing through your veins.

Mulder draws back, panting, but almost before you can catch a breath he’s back with you, sliding his hot tongue against yours, and your hands wrap into his hair as he pushes you back until you bump into the bricks behind you. If anyone comes looking for you, they’ll find you pressed against the wall with your tongue in your partner’s mouth, the two of you making out like teenagers who haven’t seen each other since last period. But, you realise, you don’t care.

You don’t care because he’s here, it’s Mulder, he’s real, he’s alive, he’s alive (alivealivealive) and he’s kissing you, and it’s Mulder, and he’s here, and you can feel his heart thumping alongside yours, and it’s Mulder, who you love more than anything, who you thought was gone forever (but he’s not, he’s here, he’s alive), and…

“Scully,” he whispers, millimetres from your lips as he pulls away again. “I thought you were…”

“Me, too.” Your voice catches in your throat.

“I got out, and then… god, Scully, they told me there weren’t any survivors.”

“I was in in the hospital and they… they said I should come here, in case…” You stop, swallow hard, and manage a broken laugh. “Mulder, please kiss me again.”

And he does. He does.