* A stock example for this franchise is the plot point that cybernetically-enhanced people's brains can be hacked by various parties for various purposes, doing things ranging from messing with their vision to allow someone to be kidnapped in the middle of a crowded street without witnesses, to giving them false memories, or even forcing them to commit suicide or murder. Or, in a funnier abuse of this technique, for the Major to make Batou punch himself in the face.
* The episode "Jungle Cruise". A killer who skins his victims alive and leaves them in great pain to die a while after it? Check. Showing the victims in all the gory detail? Check. Showing a video of the killer beginning to skin his victims alive, including a scream which consisted of pure blood-chilling agony? Check. This particular episode was gruesome enough to get an extra ContentWarning on Creator/AdultSwim (and some light editing, mostly muting out "shit" and "dickhead"[[note]]which AS these days can get away with, as seen in some of their comedy shows, most notably ''WesternAnimation/RickAndMorty''[[/note]] and digitally darkening the scene of the first murder so the viewer can't see the female victim's breasts). On Canada's YTV, the episode was initially banned due to brutal content, though the episode did eventually air with a similar warning to [adult swim]'s stating that the episode's violence is beyond what YTV usually allows.
** The scene which best exemplifies the episode is when Togusa is watching the video of the woman about to be skinned alive, and just as we hear the bloodcurdling scream, he runs outside nearly throwing up. NothingIsScarier indeed.
** He also plugs into his victim's brain to make them see through his eyes. He makes them watch themselves being skinned alive.
*** Somewhere it had been admitted that this episode was a homage to the film ''Film/StrangeDays'', and rightfully so, only what happens here is a touch more horrific.
* "Not Equal" features Section Nine investigating a heiress of a cybernetics corporation that had been kidnapped a good number of years ago by terrorists opposed to cybernetics, due to the fact that she appeared seemingly unaged and in charge of them in a recent report. [[spoiler: In reality, an old woman found alongside her that is ''[[DrivenToSuicide attempting to commit suicide]]'' turns out to of been the original girl given the one-of-a-kind cybernetics in her that the younger one lacks; the reaction of one of the JSDF soldiers that linked into her mind being a DespairEventHorizon and the circumstances all but state [[RapeIsASpecialKindOfEvil that the terrorists raped the girl enough to break her]] and made her [[ChildByRape daughter]] their new leader just to mock her. Her being an old woman was from the sheer physical and mental stress she'd endured [[TruthInTelevision causing her body to age rapidly.]]]]
** The manga version of the story turns it from heavily implications to an outright confirmation, [[spoiler: though it does ever-so-slightly mitigate it by having the heiress raise her child to be able to fend for herself.]]
* The season one episode "Eraser" has Section 9 facing off with a [[spoiler: corrupt narc squad attempting to cover up a conspiracy.]] When the enemy brings out a PoweredArmor, even Motoko doesn't stand a chance in a one-on-one encounter and gets [[AnArmAndALeg her left arm blown off]] before being stomped into the pavement. What follows after Saito manages to save her at the last second is one of the few times in the franchise [[TranquilFury the Major gets absolutely livid,]] blasting the pilot's cockpit with an anti-armor rifle over and over with only one arm until he suffocates to death out of raw payback. ''Don't fuck with the Major.''
* The first time the Individual Eleven assemble they [[spoiler:cut each other's heads off live on TV, save Kuze]].
* There's also the time the Major fires an anti-tank gun into an armoured suit from point-blank while the guy inside is screaming in terror, though that's unintentionally creepy.
* Kazundo Gohda. Period. Also, the last episode of 2nd GiG [[spoiler: when Section 9 attempts to capture Gohda, only for Major Kusanagi to BRUTALLY kill him (you see his head explode, leaving only his lower jaw and tongue)]].
* The Puppeteer seizing control of Togusa's body in ''Solid State Society'' and [[spoiler: forcing him to deliver his own daughter to it. The fact that he came ''this'' close to [[DrivenToSuicide shooting himself]] to save her makes it even worse.]]
* The second series uses exploding heads symbolically, once in the first episode and once in the last. [[{{Gorn}} There is no panning away.]]
* The manga manages to give Batou a genuinely scary "[[http://i13.photobucket.com/albums/a291/Cusashorn/IMG_20120903_235138.jpg Rape Face]]" in it's portrayal of episode 7: "IDOLATOR"