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  • Shuffle, Princess Nine, Neon Genesis Evangelion, Mobile Suit Gundam, Macross 7, Touch, Higurashi no Naku Koro ni, AIR, Star Blazers, Phoenix Wright: Ace Attorney and other series.
  • In "Live Alive", Itsuki is playing Guildenstern in Rosencrantz and Guildenstern Are Dead. Poorly. Not to mention the fact that the episode's named Live Alive.
  • The book Nagato gives Kyon is Hyperion. It's a book/series about time travel, aliens, bizarre powers and things that may or not be gods/God... Hm...
    • More than that: After reading Hyperion, one may gain a whole new level of insight into what Yuki is and what her (and the Data Overmind's) motivations are.
  • In "Someday in the Rain", Kyon and Koizumi are playing a real TCG called Dragon All-Stars that features various anime/light novel characters; among the cards shown are "Lina and Naga" and a Gourry card.
  • In "Bamboo Leaf Rhapsody", Yuki is reading Time Enough for Love by Robert A. Heinlein. This, too, has implications for the story.
  • In Dissociation, Yuki is reading Godel, Escher, Bach: an Eternal Golden Braid by Douglas Hofstadter. Yuki could start the trope on Suspiciously Apropos Literature.
  • Kyon notices that Time Traveller Mikuru has never been inside a fashion store -- rapidly changing clothes on mannequins in the window of a fashion store are part of the Time Passes Montage made famous by HG Wells' The Time Machine.
  • Another Wells reference is made by Koizumi in the 9th novel, he says that Nagato can't catch a human virus, as she is a real alien, and not a "martian from the past."
  • Each time Kyon wearily removes the frog costume during the "Endless Eight", he makes reference to a different anime/manga. For example: "Now I know how Unit 00 felt after being hit by that beam." (Perhaps the other references can be identified here.)
    • For extra fun, remember who piloted Unit 00. Then look at Yuki.
    • And he also goes 'gerogeeroo' at the end of this scene in at least two of the loops. After Haruhi and Keroro have both been referenced in Lucky Star, this completes the triangle somewhat.
    • Also in the Sigh anime: "Target center, then pull the trigger."
    • Again in Sigh, Kyon remarks that a waitress outfit is unsuitable for a battle scene. One of the alternatives he suggests is a plugsuit.
  • In the anime adaptation of Sigh Kyon mentions Apathy Syndrome, a reference to Persona 3.
  • When Haruhi starts dancing at first base, Kyon wonders if she's trying to reduce the magic points of the pitcher; the move "Odd Dance" does that in Dragon Quest.
  • In the Deep-Immersion Gaming episode "Day of Sagittarius" the space battle sequences are a direct reference to the space battles from Legend of the Galactic Heroes.
    • 6:08 in this clip. Props to the Computer Club for knowing Shostakovich's Leningrad Symphony.
    • And we have a reference to the Gundam-series ("Bring out the * beep* dams!"), including a censored one shooting.
    • It also includes shout outs to Star Blazers, which likewise took place on giant spaceships with giant cannons. The box the game comes in has a brown-bearded Expy of Captain Okita on the cover. The leader of the Computer club even quotes the Catch Phrase of Star Blazer's season 1 episodic villains by saying: "All hail the computer club!!!" The original line said by the villains every time they lost to the protagonists' crew being: "All hail the Gamilon Empire!!!" Oh, and he's got blue skin like the Gamilons, too.
  • While fighting the cave cricket, Itsuki shouts "Fumoffu!" and "Second Raid!". Doubles as an Actor Allusion -- Daisuke Ono had a minor role in FMP.
  • In "Live Alive", Kyon says "Enjoy the festival. In a normal fashion." to Those Two Guys. This is a reference to Sousuke saying "Enjoy your bath. In a normal fashion." in Fumoffu's onsen episode.
  • The name "John Smith" in itself is a direct reference to the British series Doctor Who, which is all about (you guessed it) Time Travel, sliding through alternate worlds and whatnot. Quite fitting for an alias for Kyon when it served as the alias for the Doctor, who likewise travels with a companion and establishes predetermined events, as well.
  • In the episode "The Melancholy of Haruhi Suzumiya Part 6", Kyon can be seen wearing a Hamilton American "Ventura" wristwatch, as worn by the Men in Black.
  • According to Kyon, Taniguchi and Kunikida are less harmless than a healer slime showing up alone.
  • In Endless Eight, Itsuki calls it an "endless summer" (in Gratuitous English). Kyon (also in Gratuitous English) calls it a "no future", possibly referencing the Doctor Who novel No Future.
  • Also in Endless Eight, after being told about the endless recursion of time, Kyon utters something similar to Goemon's catchphrase from Lupin III. Also at one point, after Koizumi tells him to say "I love you" to Haruhi, he replies "Ore no turn!"
  • Again in Endless Eight Mikuru says "I can't go Back to The Future!" Once an Episode.
  • In The Melancholy of Asahina Mikuru, from the 6th novel, Kyon referenced Veritaserum.
  • In the novel version of the School Festival episode, Live Alive, the band doesn't have a name and only has three members. The anime changed it to four members and used the name "ENOZ" for a reference of the band ZONE.
  • Compare Kyon's slow-mo fall through the window in Disappearance to Spike's in Cowboy Bebop.
  • In the episode "Remote Island Syndrome 2," the 'culprits' of the murder appear as black shadowed figures with slanted yellow eyes. This is also how unidentified criminals are portrayed in both the anime and manga of Detective Conan.
  • In each English book cover of the series, there is a little symbol on the top normally relating to what's going on in the book. In the latest novel, the Wavering of Haruhi Suzumiya, the symbol just so happens to be the Groundhog Day Loop's page image.
    • Strange considering the previous novel in the series was the one with the Groundhog Day Loop...
  • While explaining the concept of Moe to Kyon, Haruhi holds up two manga anthology magazines as examples. One of them has Asa and Kaede of Shuffle.
    • Itsuki Koizumi's psychic attacks in "Mysterique Sign" are named after series of Full Metal Panic. "Fumoffu! Second Raid!!"
    • In "Remote Island Syndrome Part II" Haruhi imitates the sprites from the video game Ace Attorney, as well as the dramatic close-ups and, but of course, the "OBJECTION!". Itsuki runs with it and imitates Edgeworth.
      • Also, the episode title is written with one red character, in the style of Higurashi no Naku Koro ni.
        • Not to mention that a minor character in the episode is named after Higurashi no Naku Koro ni's leading man.
        • And it may have come full circle with the latest installment of the When They Cry series, which takes place on an island isolated by a storm.
      • There were also some shout outs to Detective Conan as well during the revelation scene.
    • Though weren't the sound novels for Umineko made before that?
      • No, they weren't, no matter how you look at it. The Haruhi novel, Boredom, which contains Remote Island Syndrome, was written in 2003. The season of the Haruhi anime that had RIS was first televised in 2006. The first sound novel for Umineko came out in 2007.
      • And we can't forget:

 Tsuruya: Mikuru-chan, I want to take you home with meeee~~

    • A more subtle reference is the pun of Yuki's name on Rei Ayanami. "Rei" can mean "cold" while "Yuki" can mean snow. Nagato and Ayanami were both Japanese warships that served in World War II.
    • And in "Live Alive", you can briefly see somebody dressed up as Hard Gay in the background.
    • The book Yuki gives Kyon is Hyperion, a book with subject matter that may seem oddly familiar. Something to do with weird time traveling dilemmas, robotic aliens with human forms that don't blend in too well, things that might or might not be deities of some sort... And a data-based entity that exists somewhere humans cannot find.
      • In the second novel, they are described (Disproved in 4th book, Rise of Endymion) as made up of 3 factions. The Stables, who want to continue their relationship with humans. The Volatiles, who just want to kill all the humans. And the Ultimates, who just want to build their god, the Ultimate Intelligence. Guess who represents the first 2 factions soon after...
    • In the final episode of Haruhi-chan, there's a Shout-Out to Disappearance, specifically in Yuki's Dating Sim Visual Novel where Yuki gives the player character a Literature Club application form. The date in the upper left hand corner (intriguingly, Yuki used the Key Visual Arts date format in her game) was December 18, which is the date that Yuki hijacked Haruhi's powers and remade the world in the Disappearance of Haruhi Suzumiya.
    • A fairly unknown reference in the Western fanbase, an early episode has Kyon almost incomprehensively slurring a remark that roughly translates to, 'This has got to be a lie.' The reference is to an internet meme originating from Kamen Rider Blade where the main protagonist's slurred Japanese is referred to as 'Ondouru-Go' by the Japanese fanbase. In fact, Kyon's quote is copied exactly word for word from one of the more popular 'Ondouru-Go' phrases.
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