I’ve been writing in emacs org-mode for a couple of decades now. I wouldn’t call myself an emacs expert, and definitely not an elisp expert; instead, I’d say that know just enough to maintain an emacs environment that works for me and not quite enough to escape the occasional emacs storm. On the whole, it works. I’ve tried several different ways to write and then make use of notes on what I’m reading. First it was simple org-mode headings, one for each book, with the notes about that book nested in subheadings under the main heading. Then I spent a year or so trying to make org-roam work for me. I know that others find that a wonderful environment, but somehow I never felt at home in it. I have lots of notes in an org-roam database, but I’ve not been able to make good use of them.