Hi flint,
I don't see any D3s with stems pointing upward, and while there may be some, it is really of little concern for me as I notate with Sibelius, and if it's good enough for the program, it's good enough for me. As for the unbeamed eighth-notes, I did that with a purpose. As a singer, it is easier for me to read, and many singers who have commissioned pieces from me request it. I'm happy to oblige.