I have the same issues as this one but with more complaints.
http://www.lansweeper.com/Forum/yaf_postst12677_Upgrade-from-5-3-0-33-to-6-0-0-19.aspx#post45627 .
I'm glad that I backed up my database before I upgrade because it was terrible to see my groups become a large flat list of individual users with permissions all reset to admin+agent. In addition, Lansweeper keeps adding almost all domain users that it scanned to the list with a default admin+agent permission.
I had to shut it down and downgrade immediately concerning that lansweeper may email everyone that there is a new helpdesk assignment.
Just saying it was a terrible experience.