To your main point, no, theoretical physics paper are almost all written in latex. I can't recall word-written theory paper. Experimental papers are sometimes word, but pretty rarely. You can try randomly sample papers from cond-mat arxiv to verify it.
[1] https://journals.plos.org/plosone/article?id=10.1371/journal...
A couple of posts about how poor that paper was:
• https://lemire.me/blog/2015/01/14/knauff-and-nejasmic-recomm...
I've done professional typesetting and cataloging with QuarkXPress and InDesign both and it was extremely fast, that's for professional high quality publishing. .doc and .md is fine for information first publishing.
Latex is not simple and is in my opinion just a big nerd snipe, its the intrusive thought of layout software, for humanities sake we'd be better off with simpler tools like markdown + math notation and if latex had been never invented.
Or would you rather have me google a GUI that lets me "quickly rename" and download a few programs that have this capability? Or do a few hundred files by hand?
Command line is... fine for doing this occasionally, but it's hardly "quick" or usable for this, I'm saying that as an advanced commandline user. You're just using the tool that you already have and know, and it happens to be the system shell. It doesn't have to be.
(another question is that classic file management at the scale where a sophisticated tool is needed is mostly automated nowadays, and yes there's scripting as well)
I would prefer not to have gatekeeping either way, both "It was written using Word, it must be fake" and "Latex should never have been invented."
There are big geek communities that lead newbies astray by recommending it, it's a nerd snipe that wastes a lot of brain cycles better used elsewhere. It's only little b bad, not big B bad.
I am saying it's a poor tool, a waste of time and an evolutionary dead end, people are allowed to fetishize poor tools, efficiency, simplicity and legibility are very poor in latex world with a high learning curve for a task that is at best tertiary to the task of doing real research, it's a tool that promotes rabbit trails, bike shedding and procrastination.
And the small amount of research that has looked into this has apparently born this out in at least some small degree. It's not a hot take if it's got backing.
Today, Word is much more capable as a scientist's tool.