I have noticed that if you try to change the sync setting on a tv series it actually creates a new sync for that series so the data gets copied twice instead of just updating the existing sync on that series. The same thing happens if you enter the sync settings on the web client.
It would be great if you edit exist sync orders as well as make sure to over ride existing sync orders instead of duplicating them for the same series. It would also be great to be able to put a sort order as such so sync know which x number of eps to sync out of the z number available. sometimes you will want the latest and other times you will want the earliest ones you have not watched. (Daily shows vs tv series)
That said this feature rules and is one of the main reasons i got my plexpass. Great job so far!
