Hydra Tony Stark FanFiction

Divided we fall

Divided we fall

M/M
Multi
G
Updated
27.04.2025
Fandom
Marvel Cinematic Universe Marvel
Characters
Tony Stark, Pepper Potts, James "Bucky" Barnes, Steve Rogers, Sam Wilson (Marvel), Natasha Romanov (Marvel), Bruce Banner, Clint Barton, Wanda Maximoff, Peter Parker, James "Rhodey" Rhodes, James "Bucky" Barnes & Peter Parker,
Tags
Hurt/Comfort Hydra Peter Parker Hydra (Marvel) Polyamory Brainwashing Hot Chocolate Hydra everyone - Freeform Agender Bucky Barnes Hydra Tony Stark Hydra Steve Rogers
No one can defeat the Avengers when they come together. . . So H.Y.D.R.A. doesn't even bother trying. Kidnapping Avengers one by one, H.Y.D.R.A.'s arsenal of Assets grows.
Of Masks and Monsters

Of Masks and Monsters

F/M
G
Updated
27.04.2025
Fandom
The Avengers (Marvel Movies) Spider-Man (Tom Holland Movies) Black Widow (Movie 2021)
Characters
Tony Stark, Pepper Potts, James "Bucky" Barnes, Steve Rogers, Natasha Romanov (Marvel), Clint Barton, Wanda Maximoff, Peter Parker & Tony Stark, Peter Parker, James "Rhodey" Rhodes, Happy Hogan, Thor (Marvel),
Tags
Tony Stark Has a Heart Natasha Romanov Acting as Peter Parker's Parental Figure Tony Stark Acting as Peter Parker's Parental Figure Natasha Romanov Has PTSD (Marvel) Tony Stark Has Nightmares Tony Stark Has Daddy Issues Post-Movie: Iron Man 2 (2010) Hydra Tony Stark Natasha Romanov as Natalie Rushman Movie: Iron Man 2 (2010) Not Canon Compliant with Movie: Iron Man 2 (2010) Natasha Romanov Has a Heart (Marvel)
He was never meant to be a hero. She was never meant to trust anyone.Tony Stark—ex-HYDRA assassin, master manipulator, and the deadliest man to walk the earth—knows exactly who Natalie Rushman really is the moment she steps into his life. But rather...
Itsy Bitsy Spider

Itsy Bitsy Spider

Gen
G
Updated
27.04.2025
Fandom
Marvel Cinematic Universe
Characters
Tony Stark, Steve Rogers, Natasha Romanov (Marvel), Peter Parker & Tony Stark, Peter Parker, Stephen Strange, Peter Parker & Steve Rogers, SHIELD Agents & Staff, Hydra Agents
Tags
Hydra Peter Parker Angst and Hurt/Comfort Protective Tony Stark Tony Stark Acting as Peter Parker's Parental Figure Protective Peter Parker Peter Parker is a Little Shit Not SHIELD Friendly (Marvel) Hydra Tony Stark Old Steve Rogers Hydra and Shield Switch
What if HYDRA and SHIELD switched roles, with Peter caught in the middle?
Winter Soldier’s Partener

Winter Soldier’s Partener

M/M
G
Updated
28.04.2025
Fandom
The Avengers (Marvel Movies) Iron Man (Movies)
Characters
Tony Stark, James "Bucky" Barnes, James "Bucky" Barnes/Tony Stark
Tags
Hydra (Marvel) BAMF Tony Stark Winter Soldier Bucky Barnes Hydra Tony Stark
Everyone in the intelligence community knew it. The Winter Soldier and his partner were an unstoppable force.takes place in the same universe as meatballs and hugs, go read that if you haven’t. can be read as a stand alone.
Sum of Our Parts

Sum of Our Parts

F/M
G
Updated
28.04.2025
Fandom
Marvel Cinematic Universe
Characters
Tony Stark, James "Bucky" Barnes, Steve Rogers, Clint Barton, Phil Coulson, Skye | Daisy Johnson, Jemma Simmons, Lance Hunter, Bobbi Morse, Melinda May, Alphonso "Mack" Mackenzie, Leo Fitz,
Tags
Hydra (Marvel) Amnesia Brainwashing Red Room (Marvel) Non-Consensual Body Modification Inhuman Skye | Daisy Johnson SHIELD Implied/Referenced Brainwashing Past Brainwashing Merchant of Death Tony Stark Hydra Tony Stark Hydra Natasha Romanov
When Hydra hears that Tony Stark has regained his memories, they decide that now would be a perfect time to reclaim two of their greatest assets.
Pierce’s Prison

Pierce’s Prison

M/M
G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe The Avengers (Marvel Movies) Iron Man (Movies)
Characters
Tony Stark, Brock Rumlow, Alexander Pierce, Hydra Agents, Alexander Pierce/Tony Stark, Alexander Pierce & Tony Stark
Tags
Blow Jobs Masturbation Hydra (Marvel) Rape/Non-con Elements but not really Sort Of Daddy Kink Mind Control Stuffing Weight Gain Belly Kink Feeding Kink
Hydra find Tony in the desert instead of Rhodey.To make sure Tony doesn’t escape Alexander Pierce decides to fatten Tony up.
Cut off one head...

Cut off one head...

Gen
G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe
Characters
Tony Stark, Skye | Daisy Johnson, Jemma Simmons, Leo Fitz, Maria Hill, Natasha Romanov, Alexander Pierce, Obadiah Stane, James “Bucky” Barnes, John Garrett (Marvel)
Tags
Hydra (Marvel) Winter Soldier - Freeform Hydra Tony Stark Hydra Natasha Romanov Hydra Skye | Daisy Johnson Post-HYDRA Reveal Agents of Hydra Hydra Maria Hill Hydra Recruitment Switching Sides Hydra Jemma Simmons Hydra Leo Fitz
Excerpts and bonus scenes from my Hail Hydra story
Heroic Histrionics

Heroic Histrionics

Other
G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe
Characters
Tony Stark, Pepper Potts, Steve Rogers, Natasha Romanov (Marvel), Bruce Banner, Happy Hogan, Shuri (Marvel), Howard Stark, Obadiah Stane
Tags
Alternate Universe - Modern Setting Crack Clones Headcanon Adopted Children Alternate Universe - Vampire Worldbuilding Alternate Universe - Fae Alternate Universe - Harry Potter Setting Alternate Universe - Twins Alternate Universe - Angels & Demons Alternate Universe - Gods & Goddesses
The many and varied AUs and accompanying timelines of this particular author. Alongside many headcanons of varying intensity. Most of which revolves around Tony Stark.AKA, let's reshare everything compiled over a few years time in one handy dandy col...
Back In Line, Private

Back In Line, Private

G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe The Avengers (Marvel Movies)
Characters
Tony Stark, James "Bucky" Barnes/Steve Rogers, James "Bucky" Barnes, Steve Rogers, Natasha Romanov (Marvel), Stephen Strange, Tony Stark/Stephen Strange, Logan (X-Men), Rocket Raccoon, Remy LeBeau, Danton (Kamen Rider Ghost)
Tags
Hydra (Marvel) Stucky - Freeform IronStrange Hydra Tony Stark Hydra Steve Rogers Hydra AU
Stephen Strange, 19, was recently brought into a Hydra base and given a job. He took it knowing he'd be at least a bit more safe here than on the streets. With a mix of characters who in their own ways are each a bit odd, this job turns out to be not...
Down the Rabbit Hole

Down the Rabbit Hole

G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe The Avengers (Marvel Movies) Agents of S.H.I.E.L.D.
Characters
Tony Stark, Phil Coulson, Skye | Daisy Johnson, Jemma Simmons, Leo Fitz, Aida
Tags
hopefully Hydra Tony Stark Hydra Skye | Daisy Johnson Hydra Jemma Simmons Hydra Leo Fitz Author doesn’t actually know what they’re writing about but it’ll still be good Framework Tony Stark Framework Skye | Daisy Johnson - Freeform Alternate Universe - Different Framework Universe (Marvel) The Framework Universe (Marvel) Framework Leo Fitz - Freeform
So, I know it’s been awhile since I last posted, but school has been really hectic with exams coming up, and I just got back from Italy so I’m still jet-lagged. But excuses aside, I’ve got 3 stories in the works (this isn’t one of them), and hopefull...
Hail Hydra

Hail Hydra

G
Updated
29.04.2025
Fandom
Marvel Cinematic Universe Agents of S.H.I.E.L.D. (TV)
Characters
Tony Stark, Bruce Banner, Clint Barton, Nick Fury, Phil Coulson, Skye | Daisy Johnson, Natasha Romanov, Alexander Pierce
Tags
Hydra Tony Stark Hydra Natasha Romanov Hydra Skye | Daisy Johnson Hydra Maria Hill Other people will show up from time to time
Just a small story about certain characters working for Hydra during its reveal.Hydra AUTwo-shot
Berlin

Berlin

M/M
G
Updated
29.04.2025
Fandom
The Avengers (Marvel Movies) Iron Man (Movies)
Characters
Tony Stark, James "Bucky" Barnes, Steve Rogers, Clint Barton, James "Bucky" Barnes/Tony Stark, Obadiah Stane, Raza, Baron Strucker
Tags
Alpha/Beta/Omega Dynamics Mpreg The Author Regrets Nothing Alternate Universe - No Powers Omega Tony Stark Hydra Tony Stark Author Is Sadistic
When priorities collide and miscalculations are made, who is going to pay the price?There's a Shield agent defending him against his own superiors, yet all Bucky can think is, they took Tony //synopsis complete. the fates are set. read at your own ri...