In 'His Last Vow' there was a big amount of off-screen suffering. So here is a collection of scenes that I missed in the episode. There are intense moments of handling physical pain and mental agony, as well as a lot of H/C, doctor!John, hurt!Sherlock and unwelcome medication in Sherlock's sytem.

The boys take thirty-days leave and set off to see the sights. What could possibly go wrong on vacation? (Please note: For the most part each chapter is contained to one location and the story arc is complete within each. Road Trip began to take a life of its own at some point and became this epic length. And yes... I'm going to finish this... almost halfway done.)

Sometimes it's the little choices that make the big differences. Sheppard's friends and family try to save him, in their own ways, for their own reasons... Written for the LJ SheppardHC Secret Santa Exchange. Complete!

Alone, injured, and on the run. Who is this stranger and what is his story

The team find themselves in a dire situation involving Alien beings. Shep bears the brunt of it because of his gene.

When Sheppard gets sick off-world, he ends up fighting for more than his life.

"I'm not the monster in this situation, Nick. You are. You're just as bad as the creatures you hunt." Lots of drama and h/c goodness to come! No slash, just epic bromance! :D

An accident during a case leaves Nick blind and dependent upon friends while danger lurks in the shadows.

Soon after the Nano virus outbreak when tensions between Elizabeth and Major John Sheppard are still thick, Elizabeth finds herself on the mainland with him, helping battle an Ancient experiment come back to menace the Athosian settlement.

A young slave, who believes that all hope is lost, discovers all he has to do is trust.

An explosion rocks Atlantis with Sheppard caught in the middle, but that's only the beginning of his day-off from hell. Something is loose in the city, and it's using the residents to reach its goal: total domination. Shepwhump fest, Sheyla - NOW COMPLETE

John Sheppard answers interview questions for the expedition. A response to a challenge on the Gateworld Whump thread, except the story doesn't have any whump. LOL Rated T for a couple instances of language.

A thriving planet now devoid of life and an expedition that has vanished seemingly into thin air. Something lurks in the shadows, stalking its' prey. No place to hide. All you can do is -RUN! Stargate AtlantisXAliens crossover. Rodney and Team whump!

Sheppard's team responds to a request by an ally world and quickly discovers that there's more going on than unusual technology scaring local shopkeepers. When John goes missing, it's up to Sam Carter and the rest to get him home safely. COMPLETE

Sheppard and his team are sent to a legendary Ancient City with the aim of tracking down a ZPM or two, but when they meet the locals, things go to hell: literally. Team-fic with added Shep-whump, No pairings - Now Complete

Regardless the consequences, sometimes standing for what's right is all that matters.

...a certain John Sheppard hit his head. Well, a tree hit his head. In a lightning storm a mile from the stargate. At night. Huddled in a cave with a very befuddled John, his team must figure out how to get him home.

Captain Sean Hanson shouldn't have been nervous. After all, Sheppard accompanying his team off world was supposed to be a routine mission… supposed to be. Written for the LJ Sheppard HC Fic Exchange.

When injured during a mission, Sheppard discovers it's a long haul back to Atlantis. And that's only the beginning of his journey.

When a routine mission turns out to be anything but routine, Lorne learns a little more about life as Sheppard's XO and what makes Sheppard tick. Written for the 2011 LJ Genficathon prompt "You need a bigger boat". Jaws

After a gate malfunction leaves Teyla and a wounded John on an unknown planet during a natural disaster, Teyla must use all of her skills to keep them alive until they can get home.

John really needed to get away for a day, but what happened wasn't what he had in mind. One shot written for the Gateworld Whump Challenge prompt at end Set in season 4 between Lifeline and Reunion.

A series of unfortunate events occurs when a curse is sent via the ancient Trochlor lines. A Wraith story. Some Team Whump. Shep Whump. And even some Todd Whump.

An assasination attempt leaves John injured and his team determined to find the would-be killer.

John wakes up in the middle of the night with a tummy ache. Shep Whump ensues...

Rodney and the team work to bring John home, then fight to bring him out of the darkness. Set post S5.

Sheppard and his team find themselves trapped and separated on a planet hiding a secret behind the walls of its great cities – one that has to be revealed to save the subclasses living there from a terrible fate. Shep Whump ahead!

Serving under the famous Lt. Col. John Sheppard isn't quite what new recruit, Alex Weiss, is expecting. When John takes a team of Marines to a boring little island in the middle of a typhoon things get really interesting.

When Sheppard's team disappears on a routine off-world mission, Atlantis is left with few leads to find them, except an injured Sheppard who may… or may not be able to help them in time. Written for the LJ Sheppard HC Secret Santa Fic Exchange.

John ruins Teyla and Kanaan's harvest.

Ronon only celebrates two anniversaries. This is the second.

Atlantis is back on Earth; things should be boring, light years away from Pegasus. While trying to find a place in this new life, John struggles with politics, a pending promotion oh, and a deadly conspiracy that threatens the lives of everyone on Earth.

Written for hc bingo on lj: 'character is shown the error of his ways.' Sumner, Sheppard, O'Neill, not slash.

Another routine mission to open up relations with new worlds in Pegasus goes awry. SGA-1 discovers their friendly new allies are hiding a dark secret that could cost them their lives.

Leave no man behind" was John's Oath, but how far would he go to rescue a friend? Serious Shep whump, some whump for Ronon too with team and Carson angst and friendship. Now complete

Ronon staggered, tried to restrain him again, pulled back his fist back and that’s the moment Sheppard picked to stand between them.

Atlantis mounts a mission to stop raiders on the planet Glostern and two young corporals are put to the test when one of the Atlantis team is wounded.

John Sheppard’s puddle jumper crashes on an alien planet with one passenger on board - Colonel Steven Caldwell. The two men have to depend on one another if they’re going to survive.

My SGA Big Bang Entry. Sheppard is attacked offworld by one of Ladon Radim's men. Shortly after his ATA gene starts to malfunction and he is forced from Atlantis and must work with the man he thinks is responsible. Ladon.

This is what happens when you let whumpers request a plot: John Sheppard is kidnapped, shot, forced to aid hostile aliens in their campaign to steal Ancient technology...and he doesn't even have to step foot off Atlantis to do it. John's really bad day.

Leon Weaver doesn't like soldiers. Sheppard, OC. Gen. Shep whump.

John thought it was over, but when a new presidential advisor and an old enemy both show up on Atlantis, the wounds run deep. Set after Common Ground, so SPOILERS! Now COMPLETE!

Sheppard has to confront his worst fears when he fails to keep Rodney safe. Shep & McKay whump. COMPLETE.

John can’t even go on a simple road trip without finding trouble. However it brings him closer to his brother. Shep Whump. COMPLETE

Sheppard is trapped in a jumper, there is only little time to get to him, will the team get there in time to save him. Now complete...

When a prison sentence and an experiment rip John's memories from him, his team must help him find himself again. Spoilers through The Prodigal. Contains scenes of violence.

The team wakes up in the wilderness and whump ensues. Disclaimer: I don't own any of the SGA characters nor do I make any from the stories.

John and Rodney are lost. One emotionally. Both physically. Written for the Sheppard HC Secret Santa ficathon

Flying lesson for the newbie. This was written for the Sheppard HC LJ Community Secret Santa .

The team travels with Carson to a remote outpost where he is to assist a trio of physicians with their research. Power issues and a broken vial containing a virus are only the beginning of Sheppard's problems though. Shep whump.

Things go drastically wrong for Sheppard after Atlantis takes in a group of refugees from a Wraith culling.

Episode Tag to ‘Rising’. John Sheppard begins to adjust to his new life as the military commander of Atlantis

Todd needs John. John probably needs Todd. They have a common goal again but can they ever be friends? Inclined towards darkfic, Shep Whump. Some O'Neill and Mitchell.

Sheppard and McKay are in prison, where their attempts to survive are observed by a long-term prisoner whose heart has long been frozen against hope. Written for the Comfort flashfic challenge on LJ.

They are always escaping death, but Sheppard's newest close call will leave invisible wounds on them all. Team fic. H/C. Drama

John and his brother are kidnapped by the Trust and have to escape.

“There’s no choice. Not anymore. You will work for us. You will sever all ties with Atlantis, be it in your heart or in your head, or we will sever them for you.” Equal Sheppard & McKay Whump/Angst

Bogs, bullets, bugs, and bonding. Sheppard and the Team are in trouble and things go downhill from there.

After his "retirement" from the Air Force, test pilot John Sheppard finds himself drawn into a world where nothing is what it first seems. Not his new employer, their groundbreaking new plane... or even his irritating co-worker, Dr. Rodney McKay. -- AU.

Shep-whumpy episode tag to episode 5x02 - The Seed. MAJOR SPOILERS FOR THE SEED! Now complete.

Woolsey sends the team on a relaxing retreat of motivation and team building exercises. Too bad he forgot to factor in the Pegasus Galaxy's contribution. Humor/Whump - Team Fic COMPLETE

When John’s team is captured, John is tortured for information. Things don’t get much easier, even after they escape. Written for the 2nd Annual Ficathon at ShepsAtlantis.

Missing scene for The Seed. Takes place between the scene in the isolation room and the end scene with Beckett and Woolsey. Shep whump.

Sheppard and his team have to fight for their lives when the Wraith capture them. But for the hope of freedom, they'll have to survive in world they've never faced before. Will have some Shep whump and is rated T for now...

A routine mission leaves the team trapped in an old building and surrounded by a group of hostile men. They have no real clue as to why. Some McKay whumpage but Shep gets the brunt of it.

Missing scene tag fic to episode 5x01 - Search and Rescue. MAJOR SPOILERS FOR SEARCH AND RESCUE! Shep whump - but of course! :

Elizabeth has decided to create a bulletin board for the posting of important notices. This series of ficlets, drabbles, and other madness is the result. Spoilers for Return, Parts 1 and 2.

Sheppard and team go on a vacation, but it turns out to be a struggle just to survive. Set in early Season Four so spoilers up through at least the first half. Shepcentric with lots of Shep whump. Some violence and language but mostly like regular T.V

Teyla finds a journal about her, written by one of her teammates, but she doesn't know who. FINAL CHAPTER UP! R&R, please!

Rodney and Ronon are captured by another galactic mad man. Sheppard and Teyla try not to self-destruct while attempting to find them. A little dark.

When a disgraced pilot finally takes flight again, the clouds fall away. Sheppard POV background fic. Emotional whumping/angst.

Tag to Miller's Crossing, then some. - When Sheppard travels down to earth for a few days and finds Jeannie waiting for him, they end up in a sticky situation. No pairings, Spoilers for Miller's Crossing. More details inside. COMPLETE

Something is very wrong on Atlantis, and Sheppard is at the heart of it, walking a very dangerous path.

A fine story with smashed noses, dangling scientists, drugged colonels, broken bones, plunging jumpers, mashed glasses, bad reception, scary machinery, disappearing floors, SHARKS and an awful lot of water. Everyone gets hurt! You will love it. THE END

A tag to Quarantine where Sheppard hit the side of the tower a little harder than he thought.

Sheppard is captured and to be a slave to the wraith. It becomes more than a matter of survival, but also a matter of keeping his sanity.

Sheppard's condition takes a turn for the worst after 'Conversion'....LOTS of Shep whump... Dang, he just looks so good when he's whumped g NOW REWRITTEN!

They need only to survive the night. Ronon/Sheppard friendship.

Lorne makes a snap decision and does whatever he can to keep Sheppard alive. Written for the Secret Santa exchange on SheppardHC. Rated T for language and brief nudity.

Sheppard and McKay crash in a storm, but the crash is soon the least of their worries. Written for the Sheppard HC Secret Santa, and therefore contains Shep whump.

Written for the 2007 Sheppard hc Secret Santa. Tensions run high between Ronon and Rodney. A mission meant to give them time to work it out. But things never go the way they are supposed to and now Sheppard’s life is in their hands.

Sheppard's been shot, Rodney has a price on his head, and the hunters are closing in. As the two of them struggle to stay alive, recent events come to a head. Contains Miller's Crossing spoilers.

Carson, John, and Rodney go back to planet M7G677 when the inhabitants need a doctor. Of course though, our three heroes end up desperately needing saving...but are trapped on the planet when the Gate malfunctions. Whump! No slash

Wounded, alone, and pursued by ruthless bandits, John must depend on his team to figure out the clues he's left for them.

When an ambush leaves Ronon hurt and Sheppard badly injured, the two of them are forced to go on the run. A Runner for seven years, Ronon should find this all too familiar, but this is something new...

AU Shepwhumpy tag fic to Season 4 episode Doppelganger. WARNING! SPOILERS FOR PLOT OF DOPPELGANGER! My take on what might have happened if a certain scene had ended differently.. NOW COMPLETE.

The nightmare is over. It's time to go home. The team's journey back to Atlantis. Team fic and whump.

The team is off world again, and find themselves in the running for a great prize. The problem is that things are never as simple as they might seem. General team whumpage with an extra dosage of Shep whump because I love him best. Completed story.

Security protocols on an Ancient outpost separate the team, and an accident leaves Sheppard and McKay injured. Can they find each other and the way home? Spoilers through The Return with one tiny one for The Game.

How do you fight an enemy you can't find? How do you take a stand against one of your own? The members of the Atlantis Expedition must find a way to do both– or be torn apart from the inside out. Warning: Violence

An icy planet, a jumper crash, and a deadly enemy...

On the run with a sick Sheppard, Rodney tries to keep them both alive after being imprisoned. Whump and lots of comfort. Gen.

Sheppard and O'Neill take a jumper for a ride. Set immediately following the events of The Return Pt 2

An accident teaches Ronon more than one valuable lesson. Ronon and SheppardFriendship

Sometimes all that matters are the codes and values you uphold. A deadly vendetta will test loyalties, limits and friendships, with more at stake than anyone realizes. Contains Shep Whump. John,Ronon, Rodney Friendship

Sheppard finds himself in the hands of terrorists who plague a new ally. Alone, and certain that Atlantis has no idea where he is, John must find a way to escape before he loses all sense of what is real...and what is not.

Halloween story, albeit rather late, or, as the case may be, early. Sheppard and McKay are trapped on a world with a malfunctioning Stargate, a monster ... and a mystery. Now complete.

Sheppard's team is attacked off planet. Part of the team is stranded on the other side of the gate, but both the stranded team and Atlantis have problems to resolve before a rescue can be started. LOTS of Shep whumping...lots of whumping in general! LOL

Tag for The Hive. When John told Neera that clowns scared the crap out of him, maybe he had a reason. A very good reason.

AUish, spoilers thru Sunday. After the Siege, the characters drift apart, but the events on Doranda have far reaching and unexpected consequences. And their universe may not be the only one affected. Now complete, with chapter 15 and epilogue added.

COMPLETE. Captured and experimented on by the wraith, Sheppard must find a way to save himself before it's too late. Common Ground spoilers.

John is captured by aliens and experimented on. This is a creepy one.

A bounty hunter caused problems for our team during a routine trade negotiation. Set late season three. Now COMPLETE....

No Slash! 1. Chap.:Sheppard has a duty to fulfill. One he is afraid of. A bit of Sheppard whump.2. Chap.: John's first confinement to the infirmary. 38 minutes Spoiler, missing scene. Complete

Elizabeth was looking forward to watching Col. Sheppard win over a new batch of Pegasus Galaxy recruits... When the Wraith disrupt a routine training mission, Sheppard must show the new guys what it takes to get everyone home. Shep whump ensues. COMPLETE

Just because they’ve been sent back to Earth, doesn’t mean the adventures stop. John and Rodney run afoul of McKay’s new project in Area 51 and it’s just like old times. SheppardMcKay friendship. Complete!

Rodney pushes fate by ignoring the sign. RodneySheppard friendship story.

“Survival, Sheppard. It's all about survival...” Team fic, team whump.

Mysterious ghosts are appearing in Atlantis trying to harm its inhabitants. The race is on to solve the mystery and save Sheppard, McKay, Carson and others from murderous phantoms intend on taking lives. Many get whumped. COMPLETE

He never thought his worst enemy would become his greatest ally. Tag to Common Ground. One shot COMPLETE.

She’s mad as a hornet and isn’t going to take it anymore. Atlantis encounters a resident just waiting for Daddy to come home. Cowritten by Stealth Dragon and drufan. You know there’s gotta be whump!

Sheppard is captured by an unknown threat. Will his team find him in time? Warning: dark fic and Sheppard whumping! Rated T for now.

Shep Whump fic written for Sholio as part of the Sheppard HC LJ Secret Santa Challenge. ShepMckay friendship. COMPLETE.

I had lived alone for as long as I remember. Also known as the story where Sheppard and McKay crash, get hurt and need help, and the wraith are afoot.

After John Sheppard stumbles through the gate, battered and exhausted, holding a cure that will save his team from a deadly plague, Elizabeth is left at his bedside to wonder what he must have gone through during the 3 days he'd been missing.

Halloween challenge fic. It's Rodney's turn to tell a ghost story.

John in his element, water.

Inspired by a wonderful Carson vid I saw on lj, this looks at Carson's decisions, his difficult choices and naturally contains Shep whump...

Sheppard is stranded on a strange world where people are vanishing, and the team races to find him... and not having much luck at it.

After Trinity, Sheppard, McKay, and Zelenka are at a remote lighthouse to finish a murdered scientist's research. Now it seems someone really doesn't want the work completed, and isn't above killing again... Complete!

Phantoms tag with added Shep whump.

Common Ground Tag. John struggles to deal with conflicting emotions from Kolya's kidnapping and his own past. John's POV. New chapters for other characters added.

There's happy neoVikings, citrus poisoning, insults and apologies, a hunt and lizards. Lots and lots of lizards.

Team investigates a planet that used to be safe from the Wraith,but is now empty. McKay, Sheppard, Teyla and Ronon try to figure out what went wrong. Everyone gets hurt!

Sheppard goes missing and his friends try to move on without him but soon Atlantis is facing a new threat. Shep whump. ShepMcKayWeir friendship. Rated for violence.

Sheppard's ill, trapped, tired could his day get any worse?

Written for the Sheppard HC community challenge. Sheppard suffers when he loses a family member. Naturally Sheppard and McKay whump ensues...

John hates it, doesn't even know it's happening to him, but pity is what's going to save his life. Shep whump. Team angst, better summary inside.

Request fic for Kodiak Bear Country feat. Sheppy in restraints. Shep whumpage galore. Now complete.

Dead kings, culture shock, and an Ancient trash compactor. Sheppard and McKay find themselves at the wrong place at the wrong time, yet again. SheppardMcKay friendship.

McKay's point of view, as another mission goes horribly wrong. A little peek into the unique mind of our favourite scientist, and his peculiar friendship with John Sheppard. Whumping for both the boys this time. Chapter 7 and epilogue now up. Complete.

After a mysterious head injury, John struggles to rediscover his place within Atlantis, unaware that the city itself may hold the key to regaining what he lost. Warning: Rated T for some rough language. John's POV. Complete

How far is John willing to go to protect? Heads going snickersnack, and genetic impossibilities. Oh, and don't forget the terrible physical trauma. John's not a happy man.

When Sheppard and McKay explore the depths of Atlantis together, they find themselves in trouble again! Shep whump, with McKay friendship.Humor and drama. COMPLETE

After the events of Trinity, Teyla has a plan to repair the rift in her team, but what if there is a terrible cost? Friendship, whumping, team fic. Complete.

Rodney’s in a spot of trouble and John bails him out. Shep whumping. Complete

This is my alternate and more exciting ending for 'The Long Goodbye'. What if Teyla had shot? Contains Shepwhumping.. PS: Not a deathfic!

Kolya has a plan to exact restitution from Sheppard for his crimes against the Genii people and the Colonel ends up paying a high price.

John is wounded on mission. Each member of his team sits by his side one at a time to talk to him. TEAM FIC, SOME SHEYLA Written to celebrate Joe on his Bday 39th for Happy Joe Flanigan day.

After the Incident a few days before, John lets down his guard and pays the price. That leads to some thinking while waiting for rescue. Warning for language.

A Marine’s work is never done, especially when he is put in charge of watching Rodney McKay. Lorne’s point of view as he serves as the few, the proud… the babysitter. SheppardMcKay friendship. Part of the Point of View Series. Complete.

Sometimes dark clouds can have silver linings. Companion story to Happenstance from Shep's POV. Sheppard McKay friendship. COMPLETE

A freak accident happens on the way back to the gate, leaving McKay missing, and Sheppard to the rescue. SGAHC Challenge.

Chance brought them together. Circumstances made them friends. Will fortune be on their side when the fickle finger of fate leaves them in a desperate situation? Sheppard McKay friendship. McKay POV. COMPLETE

One version of what might have happened on the trip home following The Defiant One.

John whumping with Sheppard and McKay Friendship.

Set just after Rising. Sheppard decides its time to teach both McKay and Teyla how to use a P90. Things do NOT go as planned... COMPLETE.

The first couple of days on Atlantis—the new arrivals find some dangerous surprises in their new home, and Sheppard has to choose the members of the flagship team COMPLETE

[complete] "He scared me. The look in John’s eyes was... one of pure anger and hatred" -Weir. "I’ve seen friends die... some were blown to smithereens... got their brains shot out and I’ve had enough of it." - Sheppard. [Spoiler Warning]

McKay thinks he should lead their Team on a routine mission, Sheppard gives him his chance. Little did they know how badly wrong things could go, and who could get hurt... FINISHED!

In the midst of a terrible battle, newly commissioned Lt. McCoy meets a young Lt Kirk for the first time. As enemy lines draw near, they find themselves isolated from help. Can a seasoned physician find a way to save an injured Kirk and make it safe behin