As someone who has a great love for science and skepticism, and who's been in a lot of debates with people that are strongly anti-science in one way or another (creationists, climate contrarians, altmed proponents, believers in the paranormal, etc), I don't think The Core and The Day After Tomorrow are particularly anti-science at all.
They're definitely full of pseudoscience, bad science, and plain nonsense, and they paint a ridiculously oversimplified caricature of the scientific endeavor, sure. But I don't think that's intentional or malicious, and they don't give me the impression that the writers dislike (or are against) science. At least in these movies the scientists are not all villainous non-human creatures or arrogant ignorant jackasses who go against all evidence to deny The Truth of some paranormal event because they just "don't want to believe".
If anything, these movies seem to be more like a child-like, super naive idea of what science is and what scientists do. I suspect the people who write these kinds of movies have heard some sciency sounding tidbits (probably already distorted by the media) that they thought sounded really cool, like climate tipping points, or geomagnetic reversals. Not knowing much about how science works, they don't have the necessary background knowledge to realize how poor their understanding of the subject really is (i.e.: the Dunning-Kruger effect, the arrogance of ignorance), and so they just dream up a story around that tidbit, and assume it's close enough.
It would be nice if the writers of such films took the time to engage actual scientists. They obviously have very little understanding of the fields they're writing about. But I don't think they intentionally make movies like these to distort the public's image of science - although that is effectively the end result, and that is unfortunate and harmful. I gotta admit, though, that even knowing how bad the science is in these and other disaster movies, they're a guilty pleasure of mine.
But there are plenty of movies that clearly do have an anti-science slant. Pretty much any movie that features skeptical scientists and paranormal events, for example. And interestingly, I would argue that a movie like Jurassic Park, which is much less unreasonable in terms of how they describe the science, feels more anti-science to me in the way it depicts the consequences of scientific inquiry (Crichton was known for this).
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