Yup, I love GH, use it every day, but issue management is the pits.
It'd be really nice if I could custom sort the queue of issues so that I know what's next up in my queue of things to do; right now I've got 5 tags called NextUp:1 -> NextUp:5 on each repo; this takes way more manual updating than a simple drag/drop widget.
Like they mentioned, having a voting system would be super useful for knowing what matters -- I cringe every time I leave a +1, so I've gotten into the habit of at least adding a comment after it --- but the premise and the pain are the same.