I cannot echo this enough. As someone who's experimented with this a whole bunch with a million things, here's the thing I realized: Get good at understanding what the COMPUTER is good at vs what the HUMAN is good at. For me, all the wasted time was a result of me misunderstanding and mixing these two up.
Namely: Things like mindmaps and lots of little individual connected nodes (e.g. Obsidian) appeal in theory to human minds, because that's how our minds work.
But for me, I realized they weren't good tools for this because my brain is much much better at doing this than the software.
Ah, yes then: The software is good at 1) writing things down verbatim for detail and 2) re-reminding me of them when I go to look at them. The other stuff, the thinking and the connections, that's ME. That's NOT the software.
So for me that means. What I look at on the computer needs to be dense and well organized, not a mess of nodes. Which usually leads back to bigger, simpler chunks. I still use http://zim-wiki.org, but try to minimize the number of pages.
(To go broader, yes, this has very much deepened my skepticism of AI and machine-sentience)