Yo! Noid 2 was made for a game jam called New Jam City, hosted by the Vice Waypoint community. One of the rules of the game jam was that its name had to be derived from an episode of the Waypoint Radio podcast, with "Yo! Noid was Ahead of Its Time" being chosen for the game, and the Noid himself being used as the protagonist. The name itself is not actually used in-game, but is used on its Itch.io page. The inclusion of dabbing in this game was in reference to this, with the joke being that the Noid would be so "ahead of his time" that he would dab in a late-1990s video game.

One of the developers of Yo! Noid 2 also worked on STRAFE, a game featuring Totino's product placement. Through these food industry connections, said developer managed to contact Domino's Pizza and almost pitched the idea of having some kind of official collaboration. The developers ultimately did not go forward with, as the game's developers didn't feel they had enough energy to go through the hassle of making a pitch document. Despite the pitch not being made, the developers did compile a video of streamers talking about how the game made them hungry for Domino's for the purpose of the pitch.

Yo! Noid 2's hub world, the Noid Void, was originally going to be a tower that the player ascends, similarly to the Assassin's Creed series, where the Noid would see a set of Domino's franchises in the sky.

The Noid was originally going to be able to surf on pizza boxes in Yo! Noid 2, similarly to the shield surfing in The Legend of Zelda: Breath of the Wild.

The entrance to the final boss in Yo! Noid 2, where the player must hurl a dice into a TV screen showing Mike Hatsune's head, is assumed by many players to be a reference to another 1980s commercial, the "1984" commercial for Macintosh computers aired in 1983 and during Super Bowl XVIII in 1984, where a woman throws a sledgehammer into a TV screen showing the face of a Big Brother figure. Despite "literally everyone" he has seen play the game making the comparison, Aska, who designed this portion of the stage, said this was unintentional and he simply wanted something fragile to make it clear that the dice could be hurled, with a cracked TV screen working as the stage already had a lot of TV screens.