Got the files. Thanks Nodeity.
I had a quick look at the two files, for your T3 and T4, and their scan data (which corresponds to the Last Scanned bouquet) is identical.
Which bouquets were you seeing the channel differences between the T3 and T4 in? Doing the rescan won't update your Favourites bouquet. You have to delete any changed old entries from that and add the new ones yourself.