-When P-Star first mentions the entrances to Kahkoo-regah, he quotes the famous Legend of Zelda line- "It's a secret to everybody."
-Blue is a walking meme-o-dex- "Cool story, bro." "Mind. Blown." etc
-Wonder Red's stock combo closely resembles that of Joe's from Viewtiful Joe.
-Numerous vehicle designs are based on those from Bayonetta.
-Green's gun, Christine Daaé, is named after a character from the classic novel Le Fantôme de l'Opéra.
-Christine Daaé's upgraded form closely resembles the Super Famicom light gun peripheral, the Super Scope.
-Luka Alan Smithee wears the same scarf as his Bayonetta namesake. Alan Smithee is the pseudonym used by movie directors to dissasociate themselves from their work.
-Wonder Gamer's helmet is of course a Nintendo Famicom.
-Vorkken's line which begins with "Join me, and together we will rule the galaxy as-" is lifted verbatim from The Empire Strikes Back.
-Blue slices a falling Neo Mu pipe in two while the camera and music replicates Raiden's iconic Ray finisher from Metal Gear Rising: Revengeance.
-The 'Lost City of Lowrule' is almost certainly a pun on 'Hyrule' from the Legend of Zelda games.
-Wonder Pink's whip is fashioned from 'Belmont Alloy', a direct reference to the Castlevania games of which Kamiya is particularly fond.
-Operation 005C's boss is a loving recreation of the boxing game, Punch-Out!!
-Blue's line: "Better run home to mama now," is also one of Sarah Bryant's winquotes from Virtua Fighter 2.
-When Will's father pilots the plane toward the Geathjerk mothership in the 006-B flashback, the shape and angle of the ships closely resembles the Gradius cover art, another one of Kamiya's favourite games.
-OO6-B's shmup stage bears a striking resemblance to the 1992 Sammy arcade game, Viewpoint.
-Gimme's line: "It's come to this, you crying baby cockroaches!" refers to the eponymous Bayonetta's hypothetical worst fear.
-"Platinum Robo, Get Ready!" references the classic greeting from Sega's Space Harrier, and heralds W101's loving recreation of the same game. The Space Harrier section contains variants on the original bosses Squilla and Ida, and also repeats the original line "You're doin' great!" via Blue. It also strongly mirrors elements of Sega's Galaxy Force II.
-Blue's line: "Never tell me the odds!" is another line from The Empire Strikes Back.
-Blue's line: "Let's rock, baby!" was first made famous by Devil May Cry's Dante.
-"PLATINUM HEADBUTT TO THE MOON!" is paraphrased from Bayonetta.
-In another Metal Gear Rising: Revengeance gag, Vorkken's Meizerr smashes through an Envan during the escape from Jergingha, holding the Envan's power cell in its jaws, which it promptly crushes.
-The newspaper credits bears the slogan 'Redgrave Foundation Established', the Redgrave name being a Kamiya running gag beginning with the prototype RE4 which became Devil May Cry (the protagonist's name was Tony Redgrave), through to Bayonetta, belonging to Luka and Antonio Redgrave.