I went all in with Notes.app, sounded so appealing with much more potential features unlocked on iPad Pro with a pen, as well as iCloud web accessibility.
Then it failed syncing.
Then I noticed search doesn't work over note titles.
Then it prevented me from having more than 100 attached links (yes, links, not files) per note. Hard-coded.
Then it started crawling performance-wise. Slow startup, slow scroll.
Currently, I'm at file level when on desktop, and on paper when not. I'm not particulary happy with this either, but at least I'm aware of limitations at all times.