I feel the author's pain. I've been trying to organize all my notes for quite some time, and for now only Onenote seems to tick some of the boxes.
My requirements for notes, alongwith the issues I face in Onenote are:
- I should be able to organize them in some way. Sure, Onenote works okayish. I like the Notebook->Section->Pages structure. However, God forbid if I try to rename a notebook... I need to open Onedrive in my browser, rename from there, wait a day for the changes to sync (no I'm not joking, some notebooks I could only open the next day), open each of the 60 or so notebooks inside Onenote 2016 (NOT Onenote UWP since it couldn't find those new notebooks, or errored out trying to open them with old names), and then open those 60 notebooks again on my two desktops and a laptop. Was an awful experience and I almost quit Onenote.
- It has to be cross-platform. I do have an iPad but my main workstations are Windows and Ubuntu, and I take notes on all of these platforms, so that basically kills almost all the Apple-only apps, which is a shame since many of them seem good.
- It should either support handwriting recognition, or LaTeX in notes. The reason is I need to write down equations and/or diagrams quite often, so if I just type I'd need LaTeX, and if I jotted derivations using Apple Pencil, I should be able to bring those up later. For Onenote, this is a hit or miss. Apple pencil + Onenote works superb for jotting down, especially with the Paperlike screen protector, BUT the delay after which it becomes searchable is totally dependent on Microsoft's servers, since the server-side OCR needs to run on my notes and I have no control on the process...
Sometimes I just give up and use my trusty pencil and paper. But if I do that, I sometimes forget which notebook I had written some random derivation in September last year. Also, there's no way to search and to archive the data unless I manually scan or take photos, and even then the archival would be super clunky in the form of pictures...
All in all, this is a pretty half-assed solution I have right now. I wish there were atleast some app which was cross-platform and supported LaTeX, or some app which magically solved my problems outlined above...