Hi Mark,
I do not want to sidetrack this discussion and it sounds like you are not having the issue I am going to mention, but I thought you could not rely on this any more due to the random hash ordering of APR in recent releases (which would yield different md5sum)?
At one point I put in a local patch to fix the order of deletes. I thought I sent a note and the patch to the list. That was ages ago.
(Patch: http://astrometry.net/svn/trunk/scripts/svnsync/sort-dels.diff, but I don't know if it still applies or is needed)
cheers, --dustin