Originally Posted by Kolenka
The behavior of collections seems intentional on Sony's part. The database for books on an SD card is also stored on the card. So notes, collections, etc are all part of the card. This means swapping SD cards is easier, but also means you can't create a collection that spans an SD card and internal memory. The two are completely isolated from each other in some ways.
Agreed. I was just saying that with calibre 0.8.48+ I am able to make notes (aka bookmarks) on books that are stored on an SD card, in previous calibre versions I was able to make bookmarks but they didn't show up in the list of notes.