Exactly how many panels do you want this to go on for? Over 9000? Nobody wants that. Nobody even wants to hear the phrase "over 9000."
One of Jane's features in her Crockerdark form is an eye color scheme that bears resemblance to that of Super Buu and Kid Buu. She even imitates Super Buu's hand taunts and fighting style from the battle with Gohan.
Dave jokes about training in a (non-existent) "hyper gravity chamber" on the meteor.
At the end of "[S] Equius: Seek the highb100d", Gamzee demands that Equius kneels, then promptly shoots an arrow. One couldn't help but remember the scene in Black Lagoon where Balalaika pretty much does the same to a psycho-child.
Balalaika:I SAID KNEEL!(note that this line is also delivered in english in the VO).
The Condesce has a few things in common with Sailor Moon: both of them have elaborate hair and wear jeweled tiaras, are immature and bratty teens, become queen for a millennium or more, have many color-coded and symbol-wearing friends who all die at some point, get to meet — and can't get along with — their descendant, and have terrible handwriting that stays in adulthood.
TT: Oceans will rise. Cities will fall. Volcanoes will erupt.
It's worth noting that Jake represents Hope, so in this case, he doesn't necessarily survive.
John's admiration for Matthew Mcconaughey displayed in these posters is called back when one of the potential outcomes of the roll of the final die in the Pop-a-Matic Vrillyhoo Hammer against Bec Noir is "MCCONAUGHEY".
The Past and Future trails in the Midnight Crew intermission are a reference to Donnie's visions.
In Jade's introduction sequence, when testing out her Pictionary Modus for her Eclectic Bass, she accidentally creates a ghost image of Johnny 5. Later, during her Alchemize-o-rama, she creates a Johnnytop from her lunchtop and the image, and also attempts to make a massive weapon from a Transformer ghost image, a powerful gun and her own personal Iron Lass suit. She makes Johnny 5.
"TT: Why have you activated dear, sweet Huggy Bear?"
Dirk's Auto Responder might be one to Clu from TRON: Legacy: it/he uses a red/orange theme, is a copy of his owner at a younger age, seems to be evolving in a different direction than his creator (16 year-old Dirk is planning an (ironic?) epic Anguished Declaration of Love to Jake while 13 year-old AR doesn't seem to care about romance) and he seems to be more aggressive than Dirk, at least while using the robots; plus they both have an affinity for cool headgear: Clu is introduced lounging around in a Cool Helmet while AR is actually a pair of Cool Shades.
John is a huge fan of Ghostbusters. Later this extends to almost everyone.
Many of Caliborn's mannerisms are references to Saw. The most notable one? Ripping his leg off to get out of his shackle.
In one of the bubbles that intersects with Lord English's massive cracks in paradox space, there is a sea that falls into the cracks much like the ocean in Pirates of the Caribbean: At World's End falls into Davy Jones's Locker. The reference is certainly helped by the fact that Vriska is sailing one of her FLARPing vessels next to it, and that everyone on this ship is dressed like a pirate.
The acronym of Jake's land, LOMAX, matches the last name of the titular character of Weekend at Bernie's.
There are two references to Vladimir Nabokov in the first living room scene: John's dad has pictures and figurines of clowns (or HARLEQUINS, as he is quick to correct anyone who would venture such brazen assumptions) and one of John's commands is to "Admire harlequins," Nabokov has a novel called Look at the Harlequins!. Then when he looks at the fireplace, he recalls the quote, "The moon is an errant mistress, and her pale fire she snatches from the sun." The quote is from Shakespeare, not Mark Twain as he thinks it is, but Nabokov did, of course, take the title of Pale Fire from it.
When Colonol Sassacre is killed, it says "People would think reports of the man's death were greatly exaggerated. But they weren't." This is based on a famous Mark Twain quote, whom Sassacre is very loosely modeled after.
Not only does Cronus' backstory reveal that he's a failed Harry Potter imitation (with magical scars, no less) who eventually rejects magic altogether, but presumably, Lord English is his version of Voldemort, and the Jujus are his horcruxes. And the only known "Juju breaker," Crowbar's crowbar, shares a color with the Sword of Gryffindor's house of origin.
Vriska and Tavros's tumultuous relationship involves frequent references to Peter Pan, with Tavros as Peter and Vriska using tropes from both Tinkerbell and Hook. The shoutouts cover the entire expanded universe, including the filmed theatre adaptation and Hook, but also use references that only appear in the book, such as Vriska's weapon being a collection of eight stone dice called the Flourite Octet (a pun on Captain Hook's last words, "floreat etona").
As of the end of the Midnight Crew intermission, Vriska, Spades Slick, the harlequin doll all bear the same set of injuries: An injured eye and a missing arm. These are the same as the injuries borne by Hook.
While Mituna's introduction in Openbound included at least one misspelling of the word "helmet" as "H4ML37", it is only in [S] [A6I3] Ministrife!!! that Kurloz plays on the reference by showing up to the Meenah-Vriska battle/costume party dressed as a prince at the same time Mituna shows up asking for his helmet.
The resemblance of Crockerdark Jane's costume design to that of Little Red Riding Hood would be coincidental due to the Crocker colors...were it not for the fact that the one that makes her transform is Grimbark Jade, who has been turned by the Condesce into Jane Riding Hood's Big, Bad, Badass Wolf.
Not to mention that both have alternate incarnations that were surrogate grandmothers...
At one point, Spades Slick travels into a hotel room inside of the Green Sun. The novel version of 2001: A Space Odyssey states that the famous Gainax Ending involving the hotel room is within a Red Giant.
One of Kurloz' gifs in his signing conversation with Meulin is the famous "Tenth Doctor in the rain" clip from the end of "Journey's End." Given Kurloz' service to an entirely different kind of Lord of Time, Meulin could be considered a companion.
A mention for Caliborn's suspiciously similar sounding godtier "Lord of Time". Also just like his adult self and the Eleventh Doctor, Caliborn rocks a bowtie and suspenders.
The stripes on Lord English's Cairo Overcoat resemble a flashy version of the Fourth Doctor's scarf.
In recent strips, Roxy discovers a magical crack in her bedroom.
When Lil' Cal is given to Alpha Jack Noir and Jack stares into Cal's eyes, Caliborn's soul takes him over completely when he sees Cal's eyes become Lord English pool balls. The subsequent events suggest that like anything that sees or records a Weeping Angel's eyes, that which holds the image of Lord English becomes itself Lord English.
Later, John's costume resembles Link's outfit in Wind Waker and he comments on it.
Meenah finds one of the empty bottles Rose has been using for alchemy... and promptly throws it away, because it's just an empty bottle. note In The Legend of Zelda, bottles are rare and valuable items.
In addition, one of the songs on the "Dave, Rose: Shut Up And Jam" (which is itself a reference) is called "Octoroon Rangoon". In Barkley, Shut Up And Jam: Gaiden, one of the party members is Balthios, who is referred to as "the octoroon note or 1/8 black great-grandson of LeBron James".
Gamzee's constantly dances, similar to shop keepers in the Secret of Mana.
Not to mention he's jokingly acting like an innkeeper and charging people to rest in his pile of horns.
Entering Trickster Mode plays (most) of Totaka's Song.
The Sims (with the house-building and item-placing) and Spore (with all the Space Compression planetary hijinks) are also cited inspirations. Particularly in naming "Sburb", by Word of God a "deliberately ugly word reminiscent of the name of a Sim game".
The shop from Final Fantasy VI makes a cameo appearance in AlterniaBound's Trickster Mode screen, and ends up in the story itself later on, as part of Gamzee's trap for Terezi at the end of Year 2/Disc 1.
Lara Croft, for obvious reasons, influenced Jake's LOMAX outfit in Act 6 Act 4.
LOMAX, from orbit, looks like a combination of the Xbox 360 logo and the PlayStation "X" button.
Though Lord English's name was at first unintentionally similar to that of Lord British from Ultima, it seems that his servant Gamzee, given the discovery in A6I4 that he's nigh immortal in all timelines, is rapidly becoming an Expy of Chuckles, Lord British's jester.
And it's used as a Mundane Utility by Dave to make coffee. And there's this piece of dialog:
DAVE: two hot revitalizing cups of shitty coffee
Word of God instance: Hussie has stated that of her extensive gaming repertoire, Roxy's favourites are EarthBound and Pikmin, two titles he himself particularly enjoyed.
The interactive games, starting with AlterniaBound are meant to resemble... you guessed it.
A dinosaur from the Dinosaur Comics website's background appears momentarily here. Ryan North thinks it signifies something more.* "Believe you me: this is no mere shout-out to good, sensible web design elements. I believe this to be an acknowledgement of what Andrew and I have long known in our individual and respective heart of hearts: that Dinosaur Comics and MS Paint Adventures take place in the same universe, that one will segue into the other after only a few million years have passed, and that just as Steve Urkel and Carl Winslow could in theory go for a walk and bump into Balki and cousin Larry, so too will this pterosaur from my site one day happen to fly over the events which set up the adventures now being chronicled on his site, these adventures that take us through time and space, these adventures that have let us take control of the bodies of at least three children so far, these - these MS Paint Adventures."
One of the possible outcomes for John's roll of the final die in the Pop-a-Matic Vrillyhoo Hammer against Bec Noir is "T-REX".
Vriska herself could be a shout out to Dungeons & Dragons. Besides being a FLARPer, her lusus was a giant spider, and she could easily be described as a self-serving, back-stabbing bitch. If that doesn't scream Drow, I don't know what does.
"Drow" and "Troll" were originally both names for little fairy-goblin things, derived from "Trow". Homestuck trolls also all have grey skin and dislike the sun and bright lights. I think there's some influence there in general.
invoked The end of Act 6 animation's URL ends in the letters "DOTA" which presumably stand for Death of the Author, since, well, Hussie has just been killed by Lord English. Death of the Author is also a famous 1967 essay by Roland Barthe. In it, Barthe suggests that the author has no authority over the text, the true meaning of which is created uniquely in each reader's mind according to their own impressions as opposed to the intentions of the author. Kinda appropriate considering MSPA's reliance on audience participation, fixation on cultural references and exploring the boundaries of fiction and reality. And of course, Hussie's self-inserted character's inability to control events at this point in the story.
In the same intermission, we have "Dave's "ebubbles", which spout out seemingly random sentence fragments from Dave's previous pesterlogs. Both the name and the result are reminiscent of the infamous spam Twitter account Horse_ebooks.
The entire flash segment with Meenah is very much an extended parody of Tumblr and the kinds of people who frequent it.
A few Rainbow Dash pictures can be seen in Dirk Strider's room. While he purports to have a "strictly academic" interest in cartoon ponies, he soon admits that his affection for Rainbow Dash, at least, is totally unironic.
One of Meulin's gifs from her signing features Apple Bloom pressing an "Unsee" button.
Probably unintentional, but apparently Trickster Mode allows Jane to perform a Sonic Rainboom.
In the Tricksterlog accompanying Dirk's "Engage" flash, Jake drunkenly misspells "everybody." No, the result is not "EVERYPONY," as you might expect; it's "EVERYBRONY."
The fireflies stuck under the clouds of LOWAS may be a reference to a line from The Lion King where Timon mentions that the stars in the sky are—guess what?—"fireflies...stuck up on that big blueish-black thing." Plus the color scheme of LOWAS consisting of, well, blues and black...
Later, John's hallucination of Davesprite looks similar to Simba's vision of Mufasa.