It gets worse, though. Here is Carroll talking about how he thinks Peter having a Daily Bugle job is overachieving:
"Overachieving" means doing better than expected. Sounds like he's saying Peter Parker's luck wouldn't land him a job at the Bugle as a high school kid. I don't agree with it myself, but it's not "disrespecting the source material".
Let's face it, the real reason the Bugle isn't in this is to differentiate it from the other films. Another reason is to focus on the other aspects of the film they clearly put more attention on (again, going back to the main reason). Lastly there's not much incentive for Peter to support his aunt when Tony's helping you out - who, again, might not be there after Homecoming.
And here is him completely dismissing Spider-Man's origin story:
That's actually a very Spider-Man thing. Peter still used his powers irresponsibly in most high school versions. He learned the message, but it doesn't mean you'll perfectly and immediately put it to use in practice. The same is true of this Peter (and yes, we know from Civil War he already heard/learned the message).
If that's not being dismissive of the source material, I don't know what is. This man & the rest of the producers don't understand nor do they care about the comics.
Watts sent Tom to a magnet, science school in the Bronx because he wanted Peter to go to one in Homecoming. He's be no means as bad as Carroll but he clearly didn't care about the unique dynamic Peter had in the comics of being the only/one of the only nerds. And a consequence of the this decision is how Flash was changed to be an Academic rival & all of his friends becoming Mathletes. I wish he wasn't coming back for the sequel.
I don't know what "magnet science school" means relative to the other students. I know plenty of "magnet schools" that are actually schools within bigger schools and where the other students outnumber the "magnet students".
But even if what you're saying is true, that's no more "disrespecting the source material" than other changes from plenty of other films. Changes like this occur all the damn time. I can say I'm not a fan of it, but it doesn't mean he's "disrespecting the source material".
Caroll shading the comics:
This is meaningless. He's basically saying "how could an indoor sheltered dude like Ditko create this fun wacky world?" It's a commentary on how isolated Ditko was to everyone else, even to other Marvel creators.
To me "disrespecting the source material" is something that looks down on the source material with a smug/elitist attitude. Zack Snyder saying he "made Superman grow up" is disrespecting the source material. None of the things you listed count as that. You can disagree with them, I kinda do too, but that's different from what you're saying.