The Night Is Always Darkest Before Dawn by lawfulknightress

The Night is Always Darkest Before Dawn by lawfulknightress
http://archiveofourown.org/works/1195986
Slash  Sherlock/John
Awesome story, I do love when the author throws in a kid with my favorite pair in a believable manner. This story does so when Mary Watson dies in childbirth due to injuries from an accident. It's a couple of years before John and Sherlock get together even though they are raising a daughter together. This story follows the trio through Evelyn's 18th year so far and she is just as much of a trouble magnet as her parents. While the story is not complete it stops at a good point, The story is over 200,000 words and the last cliffhanger was painfully satisfying.  The characters are made believable because they age as Evelyn does as seen in having trouble breathing, getting more injuries, recovering slower. Evelyn has to find her feet being raised by two such different and famous men. It's hilarious especially the flashback to when she gets her first period at 3 in the morning. Poor, poor Sherlock I laughed so hard that's what he gets for being a light sleeper. Especially when he is tossing the sheets in the wash and hesitates because of possible experiments then shakes his head and drops the lid. Really Sherlock, bad thought, bad boy. Awesome story well worth rereading

Keep The Car Running by earlgreytea68

Keep The Car Running by earlgreytea68
http://archiveofourown.org/works/2322008

Arthur/Eames, Sherlock/John
Slash

I have of course seen this pairing before but never actually read it. This is excellent because you know Mycroft would use any resources he had and what's a little blackmail between friends. I just recently discovered this author and already want to recommend several stories. In this he calls in Eames to force Arthur to help get Moriarty secrets without involving Sherlock. While my favorite pair is involved the story is all about Eames and Arthur. This is the first in a series of 6 so far and you really don't have to know the movie to follow the plot line. I love how the author portrays the insecurity in both pairings as well as how far each would go to protect the other. As for the dream walking that was seriously scary. I think I found my newest ship. I'll have a whole flotilla at this rate.

Nature and Nurture by earlgreytea68
Slash Sherlock/Watson

http://archiveofourown.org/works/729134

Awesome story well written with all kinds of twists and turns. Mycroft turns up at 221B Baker Street with a baby that turns out to be the clone of Sherlock Holmes and the fun begins. Everyone is sure that this will be a disaster but John steps up because this is a part of Sherlock and who better to understand the problems of a baby genius but another genius. And lets face it Sherlock is hopeless with the little things like paying bills and buying food. There are so many delightful interactions it is hard to say but one of my favorites is "we are married and you're asking if this was a date" Or when Sherlock decided to kiss John as soon as he got home, he was tired of waiting for him to realize that he was in love with Sherlock. There is also the scene where John tells off Sherlock parents for their treatment of Sherlock and denied them any input on Oliver, he then basically threw them out. The characterization of the canon characters is spot on and the development of baby Oliver is hilarious.

The Oldest Dance by veriante

https://archiveofourown.org/works/788138?view_full_work=true
Slash: Bond/Q, Sherlock/John, Watson/006

Excellent story, great action, drama, angst and powerful emotions. Q is a Holmes and decides to step in when Sherlock jumps. Things move fast and deceit is everywhere. Bond fights his attraction to Q and loses. There is some connection he knows this just as he knows that sometime in the past Q was hurt and hurt bad. Meanwhile Sherlock learns the painful lesson that actions have consequences and breaking a trust is the hardest to repair. Instead of take 3 years to resolve it only takes a week showing what would have happened if Sherlock had allowed others to help. I love Q being a Holmes because really he fits in so well. The characters are well written and the chemistry between Q and Bond is delicious with a nice edge to keep it from being out of character. The sex scene with 007 and 008 is an interesting look at the behavior of some of the most deadly people on the planet and how they deal with the trauma of their lives sometime the only one who can help is someone that has been through the same thing. There are twists and betrayals with a definite suprise in the end. The author has managed to keep the suspense and drama flowing smoothly throughout the story all the while inserting flashbacks to what is going on with Q..

Perdition's Flames (Sherlock/John)

Perdition’s Flame by i_ship_an_armada
http://archiveofourown.org/works/891901?view_full_work=true

Very good story that explores the idea of Khan really being Sherlock Holmes and John Watson is there as well. I have read several stories where Khan is really Sherlock and some are good most were bland but this one is very interesting. There are reasonable answers for the behavior of the two during the war and a good background quote to support the fact that Spock’s mother is a descendent of Mycroft Holmes.  Komack has no idea what he is getting into because unleashing the brilliant but mad mind of Khan Noonian Singh would be bad enough, but he got the genius, does not register the box when thinking, deductive mind of Sherlock Holmes. And no one but John Watson has ever controlled him and no one ever will.  Oh and then Komack does the unthinkable and holds John hostage and we know that never ends well. In this case it ends with a busted ship an unconscious crew and Komack beat to hell. All in all a good story with great action and the team up of Watson & Sherlock.

Sherlock/John

okay I am back to my new favorites Sherlock and John.

Property of: by evenlodes friend is funny, well written and the surprise meaning of the title is hilarious. http://www.fanfiction.net/s/7434048/1/Property-Of

The Christmas Soldier - same author another great story and chapters 4 and 5 had me crying and sighing. http://www.fanfiction.net/s/7648088/1/The-Christmas-Soldier

A Case of Resurrection - much darker and intense but damn its good.
http://www.fanfiction.net/s/7709832/1/A-Case-of-Resurrection

Rent- all I can say is damn that is fucking hot! http://www.fanfiction.net/s/7855144/1/Rent

and the last ones are The Case of the Cuddle and 3 Weddings and an Explosion Part One. I love that the author shows them both as broken with a very realistic view of PTSD and that severe traumas are not healed overnight or with a few magic words. I love you does not heal everything and people in love can hurt you the worst.
 http://www.fanfiction.net/s/7905783/1/The-Case-of-the-Cuddle
http://www.fanfiction.net/s/8464781/1/Three-Weddings-and-an-Explosion-Part-One

The Babysitter's Club (Sherlock/John)

This story takes place a year after Sherlock's jump and is a crossover with The Avengers. Basically he takes Coulsons' place as the Avengers Babysitter. The story is hilarious and shows Johns growth as a person and how he deals with his grief. The Avengers become close and take exception to Sherlock's return from death. A good read.
http://www.fanfiction.net/s/8246259/1/The-Babysitters-Club by shooting-stetsons

Actions Speak Louder then words (Sherlock/John)

The first story is just so funny and soft and sad and sexy and how I can see them getting together.
The second one is a nice, hot and sexy oneshot that explores John and Sherlock's early relationship and did I say hot! I love Sherlock's answer has to what they should be called, not lover, boyfriend, partner but something more. The author is Mrs Marcus Volturri

http://www.fanfiction.net/s/8106031/1/All-Because-Of-Some-Stupid-Emotion-Called-Love

http://www.fanfiction.net/s/8526716/1/Actions-Speak-Louder-Than-Words

Forgetting

I found this on a blog called Consulting Detective on the Run (http://consulting-detective-on-the-run.tumblr.com/post/31304650237/it-slowly-becomes-a-mantra-forgetforgetforget ) and just liked it.

Alive (Sherlock/Watson)

While this is only a short story it is a good one. I can see this happening with the charachters. http://www.fanfiction.net/s/8529054/1/Alive

Alive by Johnnydspiratequeen
Sherlock opens his arms like he's expecting some kind of warm reception. John's features set like flint, his jaw rigid and his eyes cold. "I need some air," he says. He steps over the shattered mug and out of the flat. post Reichenbach/Return fic

In Darkness, Light (Sherlock/John, Lestrade)

I probably could have put this with the others but it is a much darker story and one that will surprise the reader. The author is good and I would like to see an epilogue to this one.

 In Darkness, Light by Kryptaria
"One day, we'll be standing around a body, and Sherlock Holmes will be the one that put it there..." "Why would he do that?" "Because he's a psychopath, and psychopaths get bored." Sally Donovan got it wrong.

I kept the summary because it just fits in addition, I love the depiction of Sherlock and Johns' relationship.

Velocipraptor Sherlock....Really!

Okay I'm sure you will have the same reaction that I did when I first read the summary. Where the hell did they come up with that idea but I did read it and it was hilarious because I can just see Sherlock behaving that way. Here are the links to the story because Alpha John is hot :P

 Velociraptor caenaculi
 Velociraptor interludium
 Velociraptor novus
 Velociraptor domesticus
 Velociraptor experimentalis
 Velociraptor fraternalis
 Velociraptor sociabilis
 Velociraptor salvatori
They are all short stories by Kryptaria