Does pronouncing every word accurately make you sound less like a native speaker?
As a college student, I can easily pronounce every of them correctly. But as others point out, correctness on pronunciation doesn't mean nativeness, which represents itself more by word choice, tone, accent, fluency, etc. Another reason is, some of these "often misread" words are actually dialects prevailing in part of the land, but because of the standardization they are promoted to be the "correct" one, while people in other areas rarely use or refuse to use it. e.g.脖颈、掉色