The scene of the man getting mugged, and the scene of the man attempting suicide at the beginning.
The Omnidroids are enormous black robots that relentlessly hunt and kill any Super they can get their claws on. Their attributes include Made of Iron, Adaptive Ability and Combat Pragmatist, and make it their only mission to slay their targets. The last one, the v.10, can disobey its creator and cause as much carnage as it pleases.
When Edna is showing Helen Jack-Jack's supersuit, one can see the flames being reflected off her glasses, making her look quite maniacal, complete with an extremely deranged-lookingSlasher Smile.
The list of Supers killed, lured to their deaths during the Omnidroid testing. Really, how could anyone see Syndrome as a sympathetic character after that? These are people Mr. Incredible knew personally; they were at the wedding. The increasing horror on Mr. Incredible's face certainly doesn't help either.
It's even more chilling considering that all of the Supers are simply trying to live as normal folk and during the dinner scene where Mr. Incredible is reading the newspaper, we see that the recent missing person is Gazerbeam. He is seen later as a corpse in a cavern.
Even worse, all of those people must have gone through the same anguish as Bob did. Feeling unfulfilled with normal life, Supers were approached by Mirage, given a mission, kept coming back, felt good about themselves again...and then they were killed by the ever-evolving droid.
For the aeronautically-inclined, hearing Helen's voice-overs as the missiles approach and ultimately destroy the plane is pretty scary, especially if one imagines hearing it over a black box.
Helen: Abort, abort! There are children aboard, say again, there are children on board this plane!
The Electric Torture was rather disturbing, especially for something in a PG-rated movie. Made even worse in that Syndrome's expressed motive for it (the victim "sending out a distress signal") is something the victim did entirely by accident in the first place; Mr. Incredible wasn't even aware of the homing device and when he tried to tell Syndrome this, it was immediately dismissed as lying.
Rotate* Danger *Whiirrrrr!!*
And let's not forget how Mr Incredible came to be caught beforehand - having dozens of unremovable black "balloons" fired at him as he struggles to escape, which begin to expand and completely engulf the protagonist. The point-of-view shot of Mr Incredible's quickly-fading vision is chilling, especially for anyone with a fear of confinement or suffocation.
When Mr. Incredible grabbed Mirage and threatened to kill her in front of Syndrome, with the latter not showing any concern for her.
"Remember the bad guys on those shows you used to watch on Saturday mornings? Well, these guys are not like those guys. They won't exercise restraint because you're children. They will kill you if they get the chance."
After he believes his family has been killed, Mr. Incredible: "Why are you here? How can you possibly bring me lower? What more can you take away from me?" While Mr. Incredible is saying this, he has Mirage in a death choke, is holding her a good three-four feet off of the ground and her face clearly shows pain and paleness, and on the verge of passing out because he's restricting oxygen flow.
Bob and Helen watching as Violet and Dash are about to be crushed by the Omnidroid v.10. Violet gets knocked out, leaving her and Dash defenceless against it. Dash is afraid she has been killed, and refuses to leave her side. Thankfully, Mr. Incredible holds the robot up and Helen grabs Violet just as she wakes up while Dash runs with them.
After the battle with the robot, Elastigirl is checking voicemails, and hears the babysitter that Violet hired to watch Jack-Jack panicking over the phone about her infant son. Just when it comes to a head, the girl calms down and thanks her for calling a replacement sitter. The full force of the moment floats right over the heads of younger viewers, but the look of abject horror on Bob and Helen's faces and Helen's frantic, "I didn't call a replacement!" is terrifying to older audience members.
"He's getting away, Bob! We have to do something, we have to do something now!"
Jack-Jack demonstrating his shape-shifting powers when being taken away by Syndrome. The look of absolute rage on his face when he does it is something every parent has seen.
Syndrome's death by jet turbine was just so horribly gruesome to think about.
This was foreshadowed by the exact same thing happening to a Super. While she was waving at a child in the airplane. The special features note that she was a teenager.
Stratogale, the Super dragged through the plane turbine by her cape, is dragged through head first! Syndrome does have time to feel something because he is sucked into the turbine feet first.
In the alternate opening on the deleted scenes, there's this really creepy moment after Syndrome hears baby Violet crying and then says to Bob, "You are breaking the law, Mr. Incredible. You know Supers aren't supposed to breed," his eyes just slowly move in the direction of Violet's room. There's something very unsettling about that moment which cranks up Adult Fear to the extreme. Syndrome has Bob and Helen trapped with his freeze ray and there's nothing they can do to stop Syndrome as he moves down the hall toward Violet.
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