So often when I am taking notes, the notes involve diagrams. Markdown is great at text, but has nothing for diagrams.
After a lot of thinking about this problem, I've decided to start using an iPad with an Apple Pencil and Microsoft OneNote. Here is an example of some notes I took when thinking about an AudioUnit plugin that would dilate time:
VimWiki is definitely very cool. Just sharing this in case anyone out there has the same concern as me about drawing diagrams.
That said, I rarely draw pictures and defer diagraming to my co workers, so vimwiki will fill a purpose for me.
It was a ruby rogues pick a while back, you might like it!