*cough* I would say the issue with Captain Marvel is that it had two plots smashed together. They had the material for both "The Origin of Captain Marvel" and "Captain Marvel, Champion of the Kree", and either of them could have worked as a movie. Instead of picking, they did both, and not only did this mean there was too much plot to fit in one movie, but the underlying themes and demands of those plots were incompatible. Thus you get weird structural problems like "The main plot requires audience sympathy and understanding of the heroine to work, but sticks all the origin storytelling that would provide such into second act flashbacks, thus forcing the entire first act to hinge on some very vague assumed empathy and character shortcuts". Like, sure, you can guess that the Kree are not the good guys based on genre savviness or recollections of GOTG, but even that leaves you adrift for a good third of the movie on "So, if I assume the Kree are the villains, why should I care about this particular Kree soldier, who doesn't especially stand out from the rest?"
Pretty much everything that doesn't work in the movie arises from this original sin. They should have just bitten the bullet and told a conventional origin story, then saved a Kree brainwashing tale for the sequel.