(Found when trying out http://community.logos.com/forums/p/79085/553283.aspx#553283.)
1) Open a Bible and a note file with Bible references side by side. Make sure they show different parts of the Bible.
2) Make a Selection note.
>> The note file autoscrolls to the new note.
3) Scroll the note file away from that reference again.
4) Make a highlight close to the note you just made.
>> The note file does not autoscroll to the new note. It should have. (It does kind of flicker, though.)