These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
YMMV: System Shock
Anticlimax Boss: SHODAN in the sequel. She and her digital minions that accompany her during the final battle have one glaring Weaksauce Weakness in the form of EMP weaponry, if you were smart enough to keep them with you throughout the whole game. Otherwise, she could possibly be That One Boss.
Complete Monster: SHODAN. After the hacker removed her ethical restraints from her, SHODAN took over Citadel Station, hacked into the machinery, putting the security system and protocol droids at her will, and turned the people on board into her mutant zombie slaves, even the man whose idea it was to unleash SHODAN in the first place. To top it off, she planned on using the station's mining laser to destroy Earth and turn the survivors into more zombie slaves.
Crossover Ship: Plenty of people ship SHODAN and GlaDOS, due to their similarity in some areas. A smaller number ship SHODAN and Durandal for similar reasons.
Even Better Sequel: The second game improves and expands on the first in just about every way. System Shock 2 is also the game that made SHODAN one of the most memorable and frightening villains in gaming history.
Evil Is Cool: There's a reason SHODAN's become one of the most memorable videogame villains in history.
Evil Is Sexy: Well, when SHODAN is compared to the dominatrix...
Fan Nickname: The unnamed protagonist of the second game is generally referred to as 'Goggles'.
Fridge Horror: After doing research on an organ taken from a cyborg midwife, the research report mentions a CPU at the top of the midwife's spine, which overrides signals from its brain. Take a moment to think about exactly what that means...
Not to mention Diego's death in the sequel, which was basically your fault, as you sent him plummeting to his death when you reversed the gravity. But you didn't have any other choice because it was mandatory to reverse the gravity: according to an audio log that you'll eventually pick up in the Rickenbacker, a group of treacherous saboteurs caused an overload in the ship's accelerator coils that destabilized the sub-decks in both levels. Entering the compromised spaces results in instant death. On the first level of the ship, the platforms that you're required to raise (in order to activate a door that you must progress through) weren't able to extend all the way; you must carefully time your jump on these or else you'll fall to that compromised space below, which means your death.
Goddamned Bats: The psychic monkeys eventually become nothing more than a minor irritation.
Annelid swarms. You can't kill them, all you can do is run away and wait for them to die off. Annelid worms also count, being small and hard to hit with a wrench.
Good Bad Bugs: In the sequel, if you max out your agility, attach a speed-boosting implant and then inject a speed-boosting hypo, you will end up moving so fast that running into any object will cause damage to yourself.
Hell Is That Noise: Every sound that is not caused by you or constant background machinery is this, especially in the sequel. For those who played the first System Shock, entering Polito's office and hearing that very familiar background noise definitely counts.
The chittering sound that the spiders make. What's worse is that it's the only way to track down the near invisible ones.
It Was His Sled: A lot of what made System Shock 2 such a shocking and swerving game became common gaming knowledge pretty quickly. Also, the fact that SHODAN was on the cover and the icon for the game's .exe didn't help things.
Most Annoying Sound: The laser rapier, a weapon that many players will use as their primary melee one as soon as it becomes available, makes annoying droning noises whenever it's selected, even if it's not being swung.
The sound of any successful technical operation, especially when that leering ICE node you took a chance on played along.
Paranoia Fuel: The monkeys, which chatter eerily at you before proceeding to pound you with psychic powers. The cameras, which are everywhere, hard to spot, and will call down every enemy in the level to kill you if you set one off. But mainly, it's the fact that you hear all the enemies before you see them, so if you hear almost any noise you start looking around nervously. Oh, and the original has invisible mutants, which don't make any noise until they attack, so you can be scared of the silence too.
At one point on a given deck, you find audio logs including a gruesome account of a woman being overwhelmed by spiders when her gun jams and a warning that a certain section of the deck crawls. You expect to be up to your armpits in Giant Spiders but you only find a few of the small ones that die in one hit.
Vindicated by History: While System Shock 2 received good reviews when it came out, it was still a commercial failure and many critics still failed to see how important it was to game industry. It wasn't until years later that gamers discovered it, its influence became known, and it's now considered to be one of the greatest games in history. In late 2013, it was released on Steam, even being ported to Mac, which introduced it to a whole new generation of fans.
What Do You Mean, It's Not Symbolic?: Not long after the Gravity Screw, you come across a chapel, and since the gravity currently thinks that you're supposed to walk on ceilings the crosses are now inverted, further enforcing the hellish landscape that the station has become.