I forgot to post on Friday that I finally tracked down the root cause of these issues (well, really the two root causes). One was a problem in our custom code in the installer that was, in fact, incorrectly creating a "limewire.props" directory, as many of you identified. That was the primary problem that was causing settings to be lost.

The other was a 10.2-specific issue. 10.1 had a bug when exiting any java application, and we included a workaround that fixed it. Unfortunately, the workaround broke things when Apple fixed the bug in 10.2. This created a condition where settings would not be saved some of the time. 2.7.6 fixed that issue, and 2.7.7 fixed the first issue I mentioned (barring any further complications of course!).

Thanks very much for everyone's help.