I've experienced similar frustrations with notetaking apps.

I'm now working on a tool similar to "Obsidian, Logseq and Dendron".

It came as a frustration of previous tools(I've used ALL of them). They're either not flexible enough, not light enough, not powerful enough, not portable enough etc.

So I made: https://github.com/ilse-langnar/notebook/

It combines both studying/references. So it's a flashcard(I don't user Supermemo algo tho) + Notetaking. It's also built on a standard so you can develop commandline/mobile/toaster app that is compatible.