I looked back over your log files that you had submitted to Tech Support last week with one of our developers. It appears that the connection timeout is coming from your Active Directory server. Users trying to authenticate from the commandline are gettng the timeouts because the connection is not returning in time from AD.
You mentioned users on the Web UI are not having this issue. That is because we authenticate with each command from the command line in the version you are using.
We have changed the way we do authentication in our later releases. Upgrading will eliminate this problem for you.
The latest installers can be found here:
http://support.smartbear.com/downloads/codecollaborator/installers-7-0/?dl=2
