Part 1
—Silent Knight, Iridescence, Winterspear, Miley Hooves, Runic Phial and Crystal Wishes are all characters that appear in Anzel's Memoirs of a Royal Guard and Secrets of a Royal Guard. I claim no ownership.
—Clovenworth Prison reappears, having been the main setting for the prequel.
—Silent Knight's prisoner number, 11-17-14, is a reference: the first chapter of Memoirs of a Royal Guard was published on November 17, 2014.
—Phillip references the Summer Sun Festival in a previous story, The Sun Falls, in which Silent Knight had a small cameo role. Silent references Phillip's usage of torture to extract information from a suspect.

Part 2
—"Tandem Check" is a combination of chess terms. Check is obvious: tandem refers to "tandem chess," a form of chess with two sets of players.

Part 3
—The idea of a three-legged pony with a false leg comes from the movie The Fugitive, starring Harrison Ford as Dr. Richard Kimble, which this story is partially based off of.
—While we're on the subject of The Fugitive, there's an unintentional parallel between the film and this story: in the film, Richard Kimble has a beard in the beginning and shaves it off after his escape. In this story, Silent Knight is clean-shaven in the beginning and grows a beard after his escape.
—Trottish: play on Scottish. Highland Note's name is a reference to the Scottish Highlands.
—"You're a long time dead": Scottish expression, "cheer up."

Part 4
—Piece of piss: Australian expression, "easy."
—"clipe bassa": combination of two Scottish terms. "Clipe" refers to a snitch or tattletale. "Bassa" is a shortened version of "bastard."
—Aesopony: play on Aesop. Phillip mentions the fable of the farmer and the viper, in which a farmer comes across a viper freezing in the snow and, taking pity on him, puts him in his shirt to warm it up. The viper repays his kindness by fatally biting him.
—"That's what you can expect to see when I follow you": quoting Sherlock Holmes in The Adventure of the Devil's-Foot.
—Silent's hallucinations are a key element to the story, explained in the next chapter.

Part 5
—"It's like the premise for a thriller movie.": self-awareness abounds.
—"you've got 'roos loose in the top paddock": Australian slang, "you're crazy/not that bright." 'Roos is short for kangaroos.
—Phillip's actions in leaving Silent on his own may seem harsh, but I do have an explanation for them.
—Originally, the two would arrive at the apartment to find that Soft Step had been murdered by Zugzwang to cover up loose ends, but as one of my watchers pointed out, the "Kill the henchman after the job" trope is getting old.
—For more details on Alastair the griffon, please refer to Memoirs of a Royal Guard and Secrets of a Royal Guard.
—"Guten abend, gute nacht...mit Rosen bedacht...": the original lyrics to Brahms' Lullaby. Translates as "Good evening, good night/with roses covered..."

Part 5 scrapped dialogue
Originally, I came up with some additional dialogue for Zugzwang in this chapter, based off of some of the Joker's monologue from The Killing Joke. I scrapped it because it made the chapter too long and didn't add anything.
"I guess you had a very bad day, Silent Knight," Zugzwang hissed, putting a foreleg around his shoulders in a gesture that would have been comforting in other circumstances. He nodded towards Phillip, who was watching the exchange impassively. "He had a bad day once, too, you know. You're both alike in that aspect: what else would explain why you two do what you do?" Removing his leg from Silent's shoulder he strode into the center of the room. ""You both had a bad day, and it broke you...drove you as crazy as the very ponies that you fight against...but you won't admit it! You both keep fighting on, pretending that life makes sense, that there's some point to all this suffering that you put yourselves through!" He snarled at them both. "Mein Gott, you make me want to vomit."

Part 6
—Malignant narcissism is a hypothetical psychological disorder that combines elements of narcissism and psychopathy. A malignant narcissist would be described as someone who believes that they are superior to all others and completely lacks any empathy, conscience or remorse—in fact, they often show signs of sadism, and take pleasure from manipulating and abusing others for their own ends and to demonstrate their superiority.
—It's subtle, but a point that I tried to make here was that Phillip really does understand Silent's desire for revenge: that same anger and desire for vengeance is what made him and defined him.

Part 7
—...he almost believed that he had died and, through some great cosmological error, been sent to Heaven.: recall Phillip's assertions in previous stories that he is not and never has been a good person.
—If he needed further proof that he wasn't in Heaven, this was it.: A subtle jab at Silent Knight. One of the key elements of the story up to this point was that, initially at least, our two protagonists really didn't like each other. Still, it speaks to their character that despite their feelings, both of them put their safety at risk for the other.
—Phillip may not be as crazy prepared as Batman, but he does have the right tools for the job. He marked the pocket with the first aid kit for such a situation like this, when he was incapacitated and someone else had to get to the kit.
—Phillip's anger is from Silent Knight putting himself at risk for him. Phillip considers himself responsible for the safety of his clients, and does not want them to endanger themselves for him, particularly because he doesn't consider himself worth anyone's concern. Silent, however, thinks differently, as he is a fellow Guard. Recognizing the sense of comradeship with one another, the two are able to reconcile their differences.

Part 8
—The idea of an important envelope being hidden in plain sight is taken from Edgar Allan Poe's The Purloined Letter.
—He knew it only hid him from the world, but for a while, he could find some peace in the ability to feel nothing.: also refers to Phillip's cold stoicism as a defense mechanism to block out emotional trauma...an aspect of his character that's gradually beginning to change.
—In the MLP comics, Tiberius is Princess Luna's pet opossum.
—You've heard of Chekov's gun? Miley has Chekov's cold.
—In his rage, Silent hallucinates that Tandem Check is Alastair, due to the toxin not being completely flushed out of his system, something that I've been showing throughout the story. However, now that he's got a grasp on himself, he can hopefully control himself long enough for the toxin to fully wear off.

Part 9
—I'm sorry if this chapter seems a bit rushed, but I wanted to try to wrap this up cleanly.
—The trial scene in this chapter mirrors the beginning of the story.
—I had an idea where Phillip would wonder what "thirty pieces of silver" Zugzwang promised Tandem Check in exchange for his service. I cut this as such a specific Biblical reference just seemed out of place.
—"Hoo roo" is Australian slang for "goodbye."
—Zugzwang watches Phillip leaving in the end, making it quite clear that he is still a threat for the rest of the series.

Deleted scenes
The Silent Fugitive had a lot of scenes that I came up with during production, but that ultimately had to be edited out for various reasons. I'll give you some of the scenes here.
—Originally, Phillip and Silent were supposed to talk in a bar that Phillip knew, where they would agree to help each other. In a parody of an early scene in The Terminator, a Guard would walk in and almost spot Silent, prompting them to exit hastily. I would even have Burning in the Third Degree by Tryanglz playing during that scene.
—Another idea I had was that Silent Knight would disguise himself as a doctor when he was breaking into the hospital, with the result that another doctor would ask him for help with an autopsy on a several day old body. The dialogue for this scene would be something like this:
DOCTOR: "Hey, bud, can you help me out with this?"
SILENT: "...me?"
DOCTOR: "Yeah, it'll just take a minute." (He guides Silent into an examination room, which has an extremely unpleasant smelling unrecognizable shape on the table) "We got a poor old mare here. Her daughter found her dead in her bed. We think she's been dead for a couple days now, but that's just based off the smell."
SILENT: "And we're going to autopsy her?"
DOCTOR: "That's the idea. Hand me that bone saw, will you?" (points to a large, extremely sharp saw on a table)
SILENT: "...Actually, I have another patient waiting.."
DOCTOR: "Oh, that's all right. It's not like she's going anywhere, right? (Laughs)
(Silent calmly leaves the room, casually heads to the nearest restroom and proceeds to enter the stall and vomit into the toilet)
I scrapped this scene as unnecessary and disrespectful to Silent's character.
—I also originally planned for Silent and Phillip to conduct surveillance on Soft Step in disguise. Phillip would be a street musician with a rented saxophone, and Silent would be disguised as a mare, complete with blonde wig, much to his humiliation and anger at Phillip:
SILENT: (hissing out of the corner of his mouth) I hate you.
PHILLIP: (smirking) You say the sweetest things, dear.
At the end of the story, Phillip would tease him about this:
PHILLIP: Before I forget, you left this behind. (pulls out the blonde wig and tosses it to Silent, then smirks at his expression of surprise) Actually, I think I will stay. I'm sure Princess Luna would love to hear about how you uncovered a dangerous spy ring...by dressing in drag.
SILENT: You wouldn't dare.
PHILLIP: And I'm sure your mare would like that on you.
SILENT: (tosses the wig at Phillip) That's it. Consider yourself uninvited!
PHILLIP: Like I'd want to be at your party! (they smile at each other)
Again, I scrapped this as unnecessary: the story as I wrote it out worked better.

Author's Notes:

Chapter notes from the story.