Contents of Downloads folder wiped out???

I have just migrated my data to my new mountain lion install from my time machine backup.
All of the old files I had in my ~/Downloads folder have now been wiped out, and to top it off, My old time machine backup no longer shows anything under Backups.backupdb
This really *****, as I seem to have lost all of my timemachine history.
Any ides?
Thanks,
Doug

OK, these two lines have clued me in.
drwxr-xr-x+ 5 root     staff   170 Aug 10  2011 Backups.backupdb/
$ ll /Volumes/Time\ Machine\ Backups/Backups.backupdb/
$
The first shows that there are 5 entries in the directory, the second should have immediately clued me in as ther is no '.' or '..' listed.
It is a permissions issue on how TM directories are restricted.  Bottom line is that my data is there, so that is very good.
That still leaves the way my Downloads folder was blown away by the ML upgrade/Data Migration.  I am fairly confidant that it got blown away after I ran Safari, most likely something to do with the new sandboxing.

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