In "A Mystery Solving Gang Divided!", after finally having enough of Mystery Inc. and The Funky Phantom Crew's petty feud, Velma and April finally decide to work together, and when Skip and Augie try to refuse to cooperate (again), April slams the door on them.
Velma: Okay! This is just silly! We really should be working together! April: I agree! [stares at her male teammates] Hmph! Here. Skip: Hey! April:Oh, be quiet, Skip!
Continuing onto this: Mudsy, disguised as Abraham Lincoln, was the one to make the two groups work together.
Wanda standing up against the monster at the beginning when she thinks it has Mr. Peebles.
The feats of the man claiming to be Sherlock Holmes.
"What a Night for a Dark Knight": Man-Bat goes after Daphne, who's suspended in part of the trap, only for Fred to charge forward, ready and willing to take on a mutant supervillain with nothing but his bare fists.
A non-action moment; in "The Wedding Witch of Wainsly Hall", Fred, Velma, and Daphne somehow manage to set up an elaborate system to capture the ghost and transfer the entire hall to Foxworthy's 18-wheeler so it can be transported away from the impending construction. It all goes off without a hitch.
In the climax of "Dance Matron of Mayhem!" Scooby, Shaggy, and Maddie Ziegler perform the extremely difficult dance routine, the Zobrinsky Triangle, in which they begin to twirl so fast that they begin glow a beautiful golden light that can be seen and recognized from an extra-universal level, in a super kickass moment.
Shag-Borg and Supreme Leader Dooby-Doo are walking, talking Moments of Awesome. Literally everything they do, up to and including engaging in an over-the-top Beam-O-War right in front of the gang, could go on this page. Of course, The Reveal at the end shows that they're both just animatronics set up by McDowell as part of his time travel hoax... but even knowing this does little if anything to dampen the awesome.
Not to be outdone, the normal Shaggy and Scooby successfully and single-handedly put an instant end to a millenia-old feud between their cyborg future selves by... pinky-swearing to be best friends forever, weaponizing Ret-Gone to stop the feud before it started. And the fact that this worked implies some serious Developer's Foresight on McDowell's part.
Situation: Mystery Inc., Bill Nye, and Neil deGrasse Tyson are together on Nye's spaceship, and they need to make an emergency landing on an airstrip— but the ship's front landing gear is non-functional and it looks like they're in for a rough touchdown. Solution: a cool-headed Fred remote-controls the Mystery Machine, drives it into position, and matches the ship's speed in order to catch its front end and ensure a smooth landing. Not only does he succeed, but somehow neither vehicle is visibly damaged in the process.
Bonus Awesome for Steve Urkel, whom, in a Call-Back to another episode, gave Fred the remote control, which works perfectly, despite obvious and justified misgivings by the episode's guest stars. Urkel may be a klutz, an annoyance, and an all-around Cloudcuckoolander, but when it comes to technology, he's a pro.
Alex: Whoa, hold on just a second now. I've hosted this show long enough to be truly amazed and inspired by the power of the human mind, and this human mind will not allow himself to be bullied. (to the gang) I ask you all to stand with me this day, a day that will hopefully be a history question on Jeopardy! in the future. A day when humanity stood up for itself against a robotic bully. I want you kids to win against this robot fair and square. Show the world that the human mind is an amazing gift, and one that should never be wasted!