According to animator PhantomArcade, Nene's redesign for the game went through numerous changes that ultimately did not go through. Additionally, he was the only person on the team involved with Nene's redesign.

A popular belief within the Friday Night Funkin' fandom is that the game's main protagonist Boyfriend used to be in a relationship with Pico, the main protagonist of Pico's School and the opponent of Week 3. This gained so much traction that Tom Fulp (the creator of Pico's School) jokingly said it was "official Pico 2 canon". Programmer NinjaMuffin99 initially claimed this was just a joke, but later changed his mind and confirmed it was canon. The cutscene for the song "Stress" alludes to this, as Tankman mockingly refers to Pico as Boyfriend's "sexually ambiguous, angry little friend."

On April 1st, 2021, Tom Fulp updated Pico's School as an April Fools Day joke, with this version ending with Pico revealing to Cassandra that he and Boyfriend are dating and that everybody in the school accepts them. The next day, this version would be released as a separate game called Pico's School: Love Conquers All, being set in an alternate timeline. Given that the game portrayed Pico and Boyfriend's relationship in a positive light, some fans have taken this as a sign that Tom Fulp approves of the idea that they were at one point a couple.

When Sonic Prime was released on Netflix, GameFam Studios, the development team behind Sonic Speed Simulator, inserted officially-licensed Sonic Prime product placement into their other games on Roblox - however, this included the unauthorized Friday Night Funkin' fangame Funky Friday, which they would not legally be allowed to make paid content or promotions in.

Friday Night Funkin' creator ninja_muffin99 has expressed interest in taking legal action against GameFam and Sega, though later specified that it would not be through a lawsuit. It is unknown if any legal action has or will be taken.