Bring It On: Mulder uses those exact words as he enters the game.
Character Shilling: The Lone Gunmen are all pretty much falling head over heels for the Japanese game master Daryl Musashi and his alleged skills... most unfortunately he becomes the recipient of a goryCurb-Stomp Battle upon meeting Maitreya.
Holodeck Malfunction: The game which is being developed becomes a death trap. Normally you were supposed to leave at will and it wasn't supposed to be killing players for real.
Idiot Plot: Nobody thinks of purging the computer's OS files up until the very end (where Mulder and Scully are trapped within the video game and about to be annihilated by Maitreya). Apparently, nobody had given thought about backing up the files, either. Also, apparently the ONLY way to shut down the game is with a command that deletes the entire game, for some reason. Not to mention that right after someone dies in the simulation, the first thing they do is send someone else inside...
Informed Ability: Daryl Musashi supposed to be some kind of ultra-hacker, good enough that the Lone Gunmen worship him... and yet his attempted solution to the situation with Maitreya is to charge into the game to try to shoot her, putting him within range of her sword (and so she takes his hands... and then his head), which shows the difference between hacking skills and live combat skills.
Implausible Deniability: Scully gets to showcase her regular beliefs by explaining away the first death of the episode as a (somewhat plausible) malfunction with a paint squib explosives pack-taser combo embedded within the players' vests to simulate "deaths", but she quickly runs into a wall when people's heads start literally rolling.
I Kiss Your Hand: The first victim's response to Maitreya is to drop to his knee and kiss her glove. Her response is to shoot him in the face.
Plot Hole: The game's technology is never really given a proper explanation, leading to numerous plot holes. The mechanism by which a holographic projection can kill is never explained or even given a plausible hypothesis. Nor is the mechanism by which Mulder is digitized and downloaded into the game. Nor is the means by which Maitreya escaped from Phoebe's computer into the game, or the reason she did so in the first place.
Testosterone Poisoning: Lampshaded. Phoebe's sickness at being surrounded by testosterone all day long is the reason why she designed Maitreya (as a symbol of everything she is not in specific, and a "female power" symbol in general).
The assault rifles that Mulder and Scully use on the game are those from Space: Above and Beyond (also a FOX series).
Stripperiffic: Maitreya's outfits whether playing cowgirl or soldier.
Schizo Tech: Most of the examples of these shows throughout the episode are done by Maitreya (the two greatest examples being running around with a broadsword and black-powder one-shot pistol in a Cyberpunk urban environment and literally riding a main battle tank cowboy-style while "fanning the hammer" of a six-shooter as quick as she can, disregarding the tank's cannon). Justified Trope in that she is a video game character (and doesn't needs to worry with things like reloading).