I prefer the digital pen for sketching and doodling. I exclusively sketch on my Surface now. I also prefer digital reading because I don't have to carry a book around and I can ctrl-f. It's been years since I've bought a physical book.
However for taking notes I still prefer paper. It's really small aesthetic things like the texture of the paper and the no-latency ink. For some reason although taking notes with the digital pen results in better notes the experience of taking the notes is less pleasing to me.
Like I said I optimize for the best note-taking rather than taking the best notes. Once or twice when I was bored, I intentionally created illegible notes by writing in scribbles, or writing over a full sheet as if it was a new sheet.
Even creating illegible notes produced a learning outcome, and in some cases I felt the information stuck more because those notes were different and stimulating.