What do you use, if anything, for linking between your notes? I'd ideally like to move to just plain markdown/text files, but being able to link notes together seems like an essential feature. Vimwiki seems to have support for linking and navigating between notes within markdown, but then I don't think Markor would be able to handle them, and it doesn't seem like there's any automated way to update references if a link is moved. I've considered writing some small scripts to automate the gaps, but then it starts to feel like I'm just designing another note app.

Frankly I haven't even thought about linking. I am a very light user. Though since markdown supports links and both editors support markdown, there might be a way. I literally just write notes then find them mostly by search even though I do have a basic directory structure and sensible file names.