My issue is less with notetaking per se though and more with managing both notes and files, mainly PDFs. In short, I hate the way both EN and AN show attached files; on the other hand, iCloud’s URL sharing is, well, just dumb (yes, I know I could use Dropbox or Google Drive; again, I’m trying to stick with Apple, which shouldn’t shock most people here). I guess there’s also the plain text file approach (see Merlin Mann’s post at 43Folders and @joebuhlig’s post).
I suppose this only gets to be an issue when there are both notes and files that relate to each other. Does anyone have a good recommendation/workflow for juggling related notes and files other than attaching?