These programs will not help you organize your thoughts; they work if you have already organized them. Some seem to think the causation goes otherwise.
I too often feel like my brain is like Twitter/etc. I read an article, but summarize it heavily and forget the rest. I want to A: record the summary, so at least i don't forget that, and B: ideally record a few facts that lead to that summary-conlusion-thing. So if i have to rethink my conclusion i'll know what source material it came from.
[Ultimately my problem with logseq is that as far as I know I can't run it through a browser self-hosted. Unfortunately that's what I need at work since I can't install anything and all the remote desktop things are blocked. I'm mostly an idiot about electron but I wish it functioned like X11 forwarding where you could install an app on a port and browse to it remotely.]
Of note: My mode of writing is to collect/generate messes of ideas and then clean them up and organize them iteratively to create structure and polish. I'm one of the people who used to write on index cards and then compose by rearranging them on my bed. I loved abusing Word's outline mode for rough drafts and restructuring and refactoring text and have been trying to explain the missing functionality to OpenOffice.org/LibreOffice for over a decade ("we have outline mode you just click the thing" "no it's not about creating an outline of document structure" "hey we improved outline check it out see if it looks better" loops). So when I saw some of logseq in action it was an "omg this looks even better than Word's outline mode" sort of thing. The next thing I wish logseq would do is allow you to double click to explode paragraphs and temporarily separate sentences into bullets for processing and reorganizing.
Now I view taking notes as active learning. Highly recommend the book “how to take smart notes”
Something like Building a Second Brain (with CODE and PARA) or Linking Your Thinking. The system helps, but the app enables the system.