In "Never Ape an Ape Man", Scooby-Doo shows rare courage when facing the Ape Man. This likely due to the fact that the Ape Man is at worst a real Ape. While it's bigger than Scooby is, it's something Scooby can theoretically deal with as opposed to the ghosts the gang seem to face.
This further shown when Scooby is able to get the Ape Man to back off by barking and snarling at him. This due to the fact Scooby is a large Great Dane, and thus a real threat to the man behind the costume.
In "Haunted House Hang-Up", Shaggy and Scooby broke the well roof by falling through it, meaning the perfect way to get out to use the balloons. It's almost as if they knew they would have to do that later.
In "Go Away Ghost Ship", the culprit of a pirate-themed episode is a shipping magnate.
In "A Tiki Scare is No Fair", the witch doctor only says one full sentence after making his "go away" speech at the luau, mostly trying to scare the gang with angry grunts and screams. Given that the culprit had to have an accomplice play the role during the luau, he may have avoided speaking so as not to give away to Shaggy (who had been there the first time) that it wasn't the same person under the mask.
Something similar could be why Mr. Hyde from "Nowhere to Hyde" communicates more through angry grunts and cackles than words. The gang already heard his real self speak, and he's trying to throw them off the trail.
In the series proper the gang lacks much of the Arbitrary Skepticism they would show in later incarnations. This sounds like they're just more naive, however this could be due to the fact they have a talking dog as their Team Pet which would allow they be more accepting of the possibility of the Supernatural.
Fridge Horror
In "What a Night for a Knight", what exactly did Mr. Wickles do to Hyde-White?
If Mystery Inc. never went to the museum, how do we know the professor would ever be found?
Bluestone from "Hassle in the Castle" is likely to be able to escape prison.
It's possible that he even had an escape plan put together already. It would explain a lot about why he was willing to cooperate with the police.
There is a body no one knew about at the bottom of the Graveyard of Ships. This means that he was trapped under there for quite a while before he ran out of oxygen and died, and that no one noticed. (Assuming the culprits didn't just set up a prop skeleton in a diving suit to back up their ghost story and/or as an additional scare tactic to deter snoopers.)
If Scooby had not found that secret passage in "What the Hex Going On?" how do we know the gang would have ever been found?
Zen Tuo tried to kill every member of the gang: Scooby and Shaggy by blowing up the storeroom; Daphne, Velma and Fred by locking them in a room.
In "Haunted House Hang-Up", Penrod Stillwall could easily have killed members of the gang. He starts bouncing on the bed when he thinks Scooby, Shaggy, and Velma are there. It's not them but he doesn't know that.
Shaggy and Scooby almost died. In addition to the above, they were soaring on balloons high in the air. They easily could have fallen and died.
The Ghost Clown a.k.a. Harry likely lusted after Daphne when hypnotizing her into wearing a princess outfit, which is especially creepy since she is only a 16-year-old girl while he is a middle-aged man dressed as a scary clown. It also raises the question of whether he made her do it herself or had done it personally.
"Go Away Ghost Ship" takes place in January (according to the article). The gang could easily have frozen to death.
What was Redbeard going to do with Daphne, Velma, and Fred, and was he going to release them?
Shaggy threw a lit stick of dynamite in a mine. He's lucky he didn't cause a collapse.
The Creeper episode:
Given that Carswell knew that the guard was somehow involved in putting up the camera, it probably wasn't an accident that a tree fell across the road he was using. Carswell toppled it so he'd have a chance to beat the tar out of the poor guy and retrieve the incriminating photo.
The sheriff mentions at the end that he found the bank guard tied up in Carswell's basement. But given that Carswell had already incriminated himself by essentially imprisoning the guard, why didn't he kill him? He realized the gang had the photo that would out him as a bank robber and decided that he needed to get it back before dealing with the beaten and tied-up witness. The unfortunate man's life was saved by pure luck.
Fridge Logic
Doubles as Fridge Horror. Asa Shanks will probably never walk again. The column crushed his spine. He should be dead, never mind paralyzed.
In "Go Away, Ghost Ship", how are Scooby and Shaggy not dead? They ate a soup with chains, ashes, cobwebs, and soap. Later they drink a barrel of oil. Seriously, their stomachs must be made of titanium or something.
The chains wouldn't have affected the soup's content, and ashes and cobwebs aren't poisonous, just foul-tasting. The soap may have been nasty enough to make them barf in real life, but cartoon logic allows them to belch it up as bubbles instead. As for the oil, it was probably cooking oil anyway, as it was stored in a wooden barrel rather than a metal one.
