What I found was that if one just hits "continue" (rather than "use factory defaults") - Little Snitch seemed to be OK, however I did encounter a problem.
Somewhere along the way settings got skewed and I had to go into LS and individually reset "Block" rules and "Allow" rules on a number of applications.
Two apps I encountered today that became disconnected/disabled were Speed Download and SendIt. They would no longer connect. Once I individually edited their rules in LS and linked them back up to their locations in the Applications folder, all was fine. I was also able to see a number of other ones that had broken links, and clean them up was well.
I also seem to be missing some widgets now, but no big deal, that could have happened somewhere else.
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