I am extremely disappointed at the replies from (some) experts. As a mathematician who has been worrying about the state of the literature for some time, I expected trouble like this---and expect considerably more, especially from the number theory literature between the 60s and the 90s. I also wonder how well 4-manifold theory is faring.

Much worse, this nonchalant attitude is being taught to PhD students and postdocs both explicitly and implicitly: if you are worried too much, maybe you are not smart enough to understand the arguments/your mathematical sense is not good enough to perceive the essence of the work. If you explain too much, your readers will think you think they are dumb; erase this page from your paper (actual referee feedback).

Also, like Loeffler in the comments, I don't trust the "people have been using crystalline cohomology forever without trouble" argument. The basics are correct, yes, as far as I can tell (because I verified them myself, bearing in mind of course that I am very fallible).

But precisely because of that, large swathes of the theory will be correct. Errors will be rare and circumstantial, and that is part of the problem! It makes them very easy to creep into a line of work and go unnoticed for a long time, especially if the expert community of the area is tiny---as is the case in most sub-areas of research math.