MyEclipse losing references to the web.xml file

["Bill Manuel" <bill.manuel@xxxxxxxxx>]

I have the lastest version of eclipse (3.1.2) and the lastest version
of ME (MyEclipse4.1GA_E3). I have a web project (EAR and WAR file). For
some reason my project keeps losing references to the web.xml file. The
file exists, but after a day of work, ME cannot find the file anymore.
Something is going on that is removing the references to the file. If I
view the properties of the web module (war) under MyEclipse-Web the
context root is wrong. When I create the project, I change the Web-Root
folder to WebContent and it now says WebRoot. 

I am going back to the older version of ME until someone can figure
this out. I have been screwing around with this for a week now.

I have tried to Refresh the project, but that doesnt help. The only
thing I can figure out is to delete the project and bring it in from
CVS again. We are not stroring project files or metadata files in CVS
so I know this is not the problem. What else could it be.

Thanks
Bill Manuel