* Artemis/Holly in ''Literature/ArtemisFowl'' has been the Fan Preferred Couple since the very first book. Even when Holly HATED Artemis.
** Which takes MayflyDecemberRomance to an extreme because not only is Holly very long-lived, but Artemis began the series as a ''prepubescent child''.
* Apparently, the most preferred partners for both Edmund and Lucy in the ''ChroniclesOfNarnia'' category are probably [[BrotherSisterIncest each other]]. The same was for Peter and Susan, before [[StrangledByTheRedString Caspian came around]]. Eustace/Jill and Polly/Digory are pretty popular as well, even though they're PlatonicLifePartners.
* Enjolras/Grantaire of ''Literature/LesMiserables'' have a huge fanbase.
* ''Franchise/StarWarsExpandedUniverse'' fans preferred Mara/Luke over Callista/Luke.
** And then came the "Hand of Thrawn" duology, which not only made Mara/Luke canon, but also seemed like Zahn's attempt at a FixFic of a few of the other more controversial decisions of the EU up to that point.
* ''Literature/FateOfTheJedi'' has Ben/Vestara.
* Luke and Thalia in ''Literature/PercyJacksonAndTheOlympians''. Even though Word of God states that Annabeth and Luke were in a relationship before his death, most fans still prefer Luke/Thalia. [[spoiler:[[ShipTease And there's also that little scene in Demigod Diaries when she kisses him...]]]]
** In ''Literature/TheHeroesOfOlympus'', Leo/Piper and Jason/Reyna have pretty big fanbases.
** Percy/Nico got incredibly popular on Tumblr practically immediately after the release of "House of Hades", and TheReveal that [[spoiler:Nico was gay and crushing on Percy. [[IncompatibleOrientation Despite the fact that there's no way Percy would ever feel the same way]].]] [[CrackPairing Jason/Nico]] also became a fairly popular ship.
*** Also Leo/Nico has a large amount of fans, mainly on tumblr.
* Edmond Dantes/Mercedes Herrera in ''Literature/TheCountOfMonteCristo''. They actually were canon for a while, but events occurred to split them apart. Many fans do prefer Edmond/Mercedes to Edmond/Haydee, including the makers of the 2002 film.
* Averted in ''Literature/SongOfTheLioness'' with Alanna's childhood friend George Cooper, who Pierce decided was better for Alanna after she [[ShipSinking sunk the ship]] of Alanna/Jonathan in ''The Woman Who Rides Like A Man'', but played straight with [[spoiler:Beka and Rosto]] in ''Literature/ProvostsDog'', as she ends up marrying [[spoiler:Farmer, who didn't appear in the first two books]].
* Pre-television example in ''LittleWomen'' due to it being autobiographical: Jo and Laurie become best friends and understand each other better than anyone else, but when the RelationshipUpgrade moment comes, Jo uses the old "LikeBrotherAndSister" excuse, and at some point, she wants Laurie to marry her little sister Beth. The two end up marrying different people (Jo marries her BigBrotherMentor Fritz, Laurie marries Jo's ''other'' sister Amy [[spoiler: since Beth dies]])... and continue to remain best friends and confidants.
** Alcott had her own reasons for this. Her father had high ideas and forced the family to live in a commune and try and be self-sufficient while he played philosopher all day. In order to prevent her family from starving, she wrote ''Little Women'' which actually was only the first half of ''Little Women'' as we know it today. It was a great success and so her [[ExecutiveMeddling publishers pushed her for another]]. Fans particularly pressured her to find husbands for the little women, and to get Jo and Laurie together. However the book was very much based on Alcott's own family, with [[AuthorStandIn Jo based on herself]]. Alcott wanted Jo, like herself, to remain an independent unmarried woman who earned her living through writing. However, with her family still starving, she had no other choice but to write the sequel ''Good Wives'', but [[WriterRevolt refused to let Laurie and Jo get together]].
* Alice and the Mad Hatter in ''Literature/AliceInWonderland''. The original book is for children, but some [[Series/{{Alice|2009}} adaptations]] and [[Film/AliceInWonderland sequels]] gave their relationship romantic traits. Naturally, Alice/Hatter is now the most desired ship.
** And at Disneyland, two of the costumed actors who play them are actually in a relationship, and therefore the Disney incarnations have a pretty big following on sites like Deviantart as well.
* Many readers of ''Literature/{{Ivanhoe}}'' have expressed a preference for Wilfred/Rebecca over Wilfred/Rowena. This was probably intentional. Rebecca is clearly the heroine of the book (more so than Ivanhoe as the hero); the reason they didn't end up together was that the Canon couple had been in love for a long time and Rebecca would never marry a Christian. It's probably a rare case of the author himself being one of those who preferred an alternate couple!
** Not just probably it is. [[WordOfGod Scott said so in the introduction.]] Scott also said it would have been an over-cheap and unrealistic morality lesson to have characters rewarded in this life for their good deeds with a successful spur-of-the-moment romance.
* Many - possibly even a majority - of fans of the ''EarthsChildren'' series wished Ayla had stayed with charismatic Ranec from ''The Mammoth Hunters''. Indeed it seemed like Ayla only chose to go back to Jondolar (who was being a petulant ass throughout the book) because [[UnfortunateImplications Ranec is black]]. That... or Ayla's a [[BiggusDickus size queen]].
** There's also those who [[strike: think [[NonIndicativeName Baby]] ate the wrong brother]] ship Ayla/Thonolan, Jondolar's brother, who was dead before Ayla and Jondolar ever met.
* Despite her having two canon lovers, the majority of the fandom of ''TheSookieStackhouseMysteries'' are rooting for Sookie to end up with either her boss, Sam the shape-shifter, or Bill's "boss", Eric Northman.
** [[spoiler:Eric Northman]] became the latest canon relationship. [[spoiler:(They'd had sex before too.)]]
* Many fans (and even more [[{{Hatedom}} non-fans]]) of ''Literature/{{Twilight}}'' think that Bella would have been better off with Jacob than Edward. A lot of reviewers of the film adaptation of ''New Moon'' agreed with them, saying that Bella had more chemistry and believable development with Jacob than she did with Edward.
** Jacob/Leah is also preferred over Jacob/Nessie.
** Subsequently, people prefer shipping Nessie with [[EnsembleDarkhorse Seth]], because he's closer to her age, is [[NiceGuy a very likable guy]], and a relationship with him would lack the ''enormous'' UnfortunateImplications and {{Squick}} Jacob/Nessie has.
** Bella and Alice also have a large following due to their RelationshipWritingFumble.
* One of the [[OlderThanSteam oldest]] examples of this is shown in the Portuguese/Spanish (its authorship is disputed) medieval romance ''Amadis Of Gaul''. Except that in this case it's not so much FanPreferredCouple as ''King'' Preferred Couple. To further elaborate: the hero Amadis is inextricably faithful to the princess Oriana. During one of his quests, however, one lady Briolanja falls desperately in love with him, and puts him in jail because he refuses to go to bed with her. Apparently the king of Portugal at the time, D. Afonso, really liked Briolanja and wanted her to have a happy ending, so he himself ordered the book to be changed, and have Amadis get hitched with Briolanja (with Oriana's permission, otherwise he'd die... it's a long story). This is [[RetCon retconned]] in later editions of the book, where the "author"/compiler himself narrates this version of the story, but immediately says afterwards something along the lines of "but this is just the king's whim and not what really happened". And then goes on with the "original" version. It's bizarre.
* For VCAndrews' Casteel series, a lot of readers preferred Heaven to be with Troy instead of Logan, even after Troy was revealed to be Heaven's ''uncle''. This is because, aside from incest not exactly being rare in Andrews' works, Troy was the TroubledButCute guy [[AllGirlsWantBadBoys female readers swooned over]] who actually turned out to be more thoughtful and caring towards Heaven than Logan was, making readers wish that he didn't have to be related to Heaven.
* The pairing generally preferred by the ''Literature/VampireAcademy'' fanbase is [[spoiler: Rose and Adrian]], spoiler-tagged for the benefit of those who don't know it's not the end pairing yet.
* In ''Literature/{{The Lord of the Rings}}'', many readers were taken by surprise by Sam's sudden interest in otherwise barely mentioned Rosie, after a trilogy of obsessive devotion to "Master" Frodo. Compare the amount of Rose/Sam fanworks to Frodo/Sam.
* A large number of fans think that [[Literature/LesMiserables Marius]] chose wrong in picking sheltered [[TheIngenue ingenue]] Cosette over street-smart StalkerWithACrush Eponine. Never mind that he didn't know the latter loved him until [[spoiler:right before she dies]] in the book, and ''never'' in the [[Theatre/LesMiserables stage show]].
* In the ''Literature/GoodOmens'' fandom, [[HoYay Crowley/Aziraphale]] easily makes up at least 90% of all fanfics. In canon, they're literally-{{Asexual}} [[HeterosexualLifePartners Life Partners]].
* In ''Literature/DarkestPowers'', Derek and Chloe were the fan preferred couple from the very first book, despite Derek's brother flirting with Chloe and Chloe tentatively reciprocating.
* In ''SherlockHolmes'', there is Holmes/Watson - one of the, if not ''the'', most slashed pairing ever. Non-yaoi fans can also [[PromotedToLoveInterest promote Irene Adler to love interest]], which many, many, writers, playwrights and scriptwriters have done throughout the years.
* With Samuel Richardson's epistolary novel, ''Clarissa'', readers wrote to the author before the last volume was released, asking him to give the story a happy ending involving a wedding between the heroine, [[TheIngenue Clarissa]], and the villain, [[AllGirlsWantBadBoys Lovelace]]. Readers liked Lovelace despite his actions, which included raping the main character, and thought Clarissa was prudish and a tease. Richardson not only refused to change his plans for a tragic ending, he also [[WriterRevolt rewrote parts of the novel for later editions]] adding 200 pages and making Lovelace even more of a villain. Some readers were so against the tragic ending of the story that they [[FixFic wrote their own versions]]. Two examples of these [[{{Shipping}} shippers]] are Lady Bradshaigh and Lady Elizabeth Echlin. While Bradshaigh just rewrote the ending, giving Clarissa and [[DracoInLeatherPants Lovelace]] a wedding on his deathbed, Echlin rewrote her own version of the entire novel.
* Subverted in ''The39Clues'' book series. Starting in the third book, fan-preferred couple [[spoiler: [[TheSmartGuy Amy]] and [[HandsomeDevil Ian]]]] (spoilered for those who haven't read the third book) seem to be set up as the OfficialCouple, but [[AnchoredShip never really get together]]. Fans reacted by [[http://www.fanfiction.net/s/5773510/1/Down_With_Kurt throwing books at the wall when the girl showed an interest in another boy]], comparing such boys to the BigBad, accusing them of being a BiggerBad, and writing FanFiction [[http://www.fanfiction.net/s/5773510/1/Down_With_Kurt dedicated entirely to torturing or complaining about said boys]]. Also deconstructed because the boy is really a DracoInLeatherPants who probably would make a bad boyfriend for the girl.
* Judging by fanfiction.net, Draco/Hermione is the most popular pairing in the ''Literature/HarryPotter'' fandom, with 49,031 stories. The canon ships (Harry/Ginny and Ron/Hermione) are at 21,360 and 23,070 respectively. Harry/Draco seems to the second most popular with 47,401. Harry/Hermione is at 23,593 (all numbers as of January 09, 2013). (Yet nothing for Harry and Luna? sigh.)
** Neville/Luna is rather popular, though, much moreso than the canon pairings they have.
** As of July 2013, Lupin and Tonks have 5822 fanfics on fanfiction.net; Lupin and Sirius have 16797. Many thought the two were really "together", including the actors.
* Quite a few Janeites wish ''MansfieldPark'' had ended with [[spoiler:Fanny/Henry Crawford]] and [[spoiler:Edmund/Mary Crawford]] instead of [[spoiler:Fanny/Edmund]], despite the fact that Austen always strives to show that true love arises from similarity of character and that [[RealityEnsues bad boys will not change for a good girl]].
* Septimus/Jenna and Marcia/Silas are this in ''Literature/SeptimusHeap'', in spite of the fact that Septimus and Jenna are [[NotBloodSiblings siblings]] and that Silas is married and has seven kids.
* There are a lot of ''Literature/BattleRoyale'' fanfictions dedicated to Shinji and Takako.
* Most fans of ''Literature/ConfessionsOfGeorgiaNicolson'' ship Georgia and Dave.
* There's some indications fans of ''Literature/ConfessionsOfADListSupervillain'' prefer Wendy/Cal over Aphrodite/Cal.
* ''Literature/TheBooksOfEmber'' has Doon and Lina.
* Riley and [[spoiler: Beck]] are this in ''Literature/TheDemonTrappers''.
* Despite (because of?) the lengths gone to establish Ashe as Rhapsody's soul mate, many ''Literature/SymphonyOfAges'' fans prefer to pair her with Achmed. Possibly subverted in that [[spoiler:Achmed has decided to wait to get with Rhapsody until after Ashe dies making the couple borderline canon after all.]]
* ''Literature/WarcraftTheLastGuardian'' has Garona and Khadgar; so much so that when Garona was first announced to have a son with magical potential, many fans assumed the father would be Khadgar.
* ''Literature/TheWomanInWhite'' has Walter and Marian.
* A good chunk of the ''EmilyOfNewMoon'' fandom favours Emily/Dean over Emily/Teddy.
* ''CassonFamilySeries'' has Tom/Rose.
* NancyDrew and... take your pick between one of the Hardy boys, or one of the various single male suspects in any of the games, [[FoeYay even if it's the culprit]], [[CrackPairing or if it would be totally unlikely in the game or in real life]]. The most popular of these, though, is Nancy and Dave from ''Secret of Shadow Ranch''. Poor Ned...
* Most ''Literature/TheLastVampire'' fans seem to ship Sita/Yaksha.
* Nasuada and Murtagh are this in ''Literature/InheritanceCycle''.
* Helen (the Queen of Eddis) and the Magus of Sounis are this for some ''Literature/TheQueensThief'' fans. Some are still happily shipping Helen/Sophos [[spoiler: ''encouraged by'' the latter's mysterious disappearance]].
* [[MentorShip Skulduggery and Valkyrie]] from ''Literature/SkulduggeryPleasant'' is popular but also rather polarizing due to Valkyrie being underage and some other... [[DemBones obvious limitations]].
* ''Literature/AgentPendergast'' has Pendergast/Corrie, Pendergast/Diogenes, Pendergast/D'Agosta, Pendergast/Constance...
* Some ''Literature/AtlasShrugged'' readers much prefer Dagny/Hank to Dagny/Galt.
* In ''Literature/GeorginaKincaid'', Georgina/Seth is often ditched in favor of Georgina/Carter, Georgina/Jerome, and Georgina/Roman.
* An odd example with MaryRenault's ''The Charioteer''. Laurie and [[spoiler: Ralph]] end up together, so they're actually canon. However, this was not intended as an unmitigated happy ending -- almost none of Renault's endings are. Many fans, particularly the straight female fanbase though also some in the gay male fanbase, think that [[spoiler: Ralph]] was supposed to be the right guy for Laurie all along, when in fact Renault wrote in a letter that at the end [[spoiler: Ralph]] was "being taken on out of pity" by Laurie.
* Claudia's sister Janine and Kristy's older brother Charlie are this for many ''Literature/TheBabySittersClub'' fans.
* ''WarriorCats'': [[DeadpanSnarker Jayfeather]]/[[TheWoobie Briarlight]]. The fact that both of them are disabled yet determined to help their Clan, along with how she moved in with him after the accident that paralyzed her, quickly caused them to become one of the most popular pairings in the fandom. The fact that ShipTease is thrown their way like water on a fire doesn't help (or does, depending on your point of view).
** After they broke up, fans pretty much rallied and demanded that the Erins put [[spoiler:[[JerkWithAHeartOfGold Brambleclaw]] and [[RebelliousPrincess Squirrelflight]]]] back together. [[spoiler:It doesn't happen in the books, but WordOfGod says that yes, they ''did'' eventually reconcile their relationship, so this is a weird mix of FanPreferredCouple and OfficialCouple.]]
** [[BloodKnight Lionblaze]] was commonly paired with Icecloud and Hazetail in fanworks, the former because she barely got any screen-time, and the latter because it ''was'' hinted that he had a crush on her. His RelationshipUpgrade with [[spoiler:[[NiceGuy Cinderheart]]]] did nothing to stop the fans.
* ''Literature/TheIliad'' has Helen/Hector. Helen is/was the queen of [[ProudWarriorRaceGuy Sparta]] and subtly derides Paris for letting Hector do all the fighting. Hector is a CrazyAwesome [[{{Badass}} warrior]] who [[KnightInShiningArmor treats her courteously]], [[HonorBeforeReason even though he has every right not to]]. Since Helen openly wishes that Paris was more like Hector and Andromache is rather flat as a character, you can see where people are coming from.
** And of course, on the other side of the war, there's always Achilles/Patroclus.
* In ''Literature/TheDresdenFiles'' the majority of the fanbase shipped Harry/Murphy (who are best friends on the edge of RelationshipUpgrade) over the official Harry/Luccio. [[spoiler: It turns out that Luccio was brainwashed into dating Harry, and they break up]]. And since ''Changes'' there's been more official ShipTease for Harry/Murphy.
** Weirdly, the fanbase has a large slice of YaoiFangirls (Fanboys?) who ship Harry, the BigGood, with Marcone, the AffablyEvil mob boss. This is strange because Harry's narration has a lot of MaleGaze, and he is AmbiguouslyBi at most. At any rate, this one isn't about to become canon.
* Lots of ''HIVESeries'' fans are pretty damn obsessed by [[UnholyMatrimony Nero/Raven]]. There also seems to be a bit of [[HoYay Otto/Wing]] floating around too.
* [[HoYay Fitz/Eight]] is so popular in the ''Series/DoctorWho'' ''Literature/EighthDoctorAdventures'', even the ''authors'' ship it!
** To elaborate, both of them are canonically BiTheWay, and the Doctor has NoSenseOfPersonalSpace and has kissed Fitz more than once just because he was happy to see him. Fitz has on a few occasions admitted to having a crush on the Doctor, and eventually flat out admits he's in love with him. While the BBC didn't really allow anyone to explicitly portray the Doctor as in love with another man, many of the writers slipped in hints whenever possible, and towards the end of the series's run, most of the recurring writers had given up trying to [[GettingCrapPastTheRadar get crap past the radar]] because it had become patently obvious that the radar didn't care.
* With ''Literature/TheBible'', lot of people (and the nation of Ethiopia) believe the Queen of Sheba was one of King Solomon's lovers. Meanwhile, Mary Magdalene and Jesus is this to Gnostics and DanBrown.
* ''BridgeToTerabithia'''s Jess/Leslie (or "Jesslie") is a bit of an odd duck among fan preferred couples because a) it's the ''only'' thing anyone in this fandom ships, and b) it would be completely canon if not for Leslie ending up on the wrong end of a DiabolusExMachina. A none-too-small portion of the fanfic for this story is dedicated to pushing the ResetButton as far down as it'll go, often by revealing [[RealAfterAll there was something genuinely mystical about those woods after all]].
* Even though the canon pairing is Gregor/Luxa, many ''Literature/TheUnderlandChronicles'' fans seem to prefer Gregor/Howard for some reason.
** Or Gregor/Henry. Or Bane/Ares. Or Ripred/everyone.
----