They're really two different options of the same thing.
A print PDF can be interactive and an interactive PDF can go to print.
It really depends on content and distribution.
If a PDF is going to print, it often has no need to retain any of the interactive aspects of a PDF (and the print PDF is unlikely to have video, etc.)
If a PDF is intended to be interactive, it's usually meant to be distributed via web or email, so retaining high res images isn't necessary.
There's a fair bit of trade off.
I usually keep the interactive bookmarks in a print file, but not always.