- He Who Fights Monsters: The author expected that the inflation scene from "Spike at Your Service" would inspire a flood of Applejack-centered inflation fetish stories, so he wrote Breathers for Applejack partly as a rebuttal to that sort of story. But that flood never materialized. What was supposed to be a parody of fics about that specific scene, instead wound up being the most notable fic about that scene.
- Shout-Out: The title is a rather bizarre shout-out to the completely unrelated sci-fi novel Flowers for Algernon. According to Word of God, the author was trying to think of a name after finishing the first chapter. He thought back to his previous MLP Fanfic, Sombra's Game, and his train of thought was as follows: "Sombra's Game" -> "Ender's Game" -> "Flowers for Algernon" -> "Flowers for Applejack". This unintentionally created a naming scheme for his MLP fanfics. The third (complete) story, The Sun And Moon Are Harsh Mistresses, continues the trend as a more on-the-nose shout out to The Moon Is a Harsh Mistress.
- Word of God: The author has stated that the Ambiguous Disorder that Twilight seems to suffer from is obsessive compulsive disorder, which he suffers from, as well. Besides her typical obsession with order, she displays a tendency to jump to pessimistic conclusions and obsessively think about things that stress her out. She doesn't display ritualistic behavior, but she does chew on her hoof-tip when she's nervous or thinking, which can be seen as analogous to nail-biting (onychophagy), a fairly common stress-relieving compulsive tic.
Trivia / Breathers For Applejack