I've been having the same problem, I'm just curious if you ever found the issue. I think it might have something to do with admin priviledges because at my office, I have separate account for admin priviledges and DxD doesn't have these errors. Problem is that I need to be on my regular account to access our network and that's where DxD gives me these exact errors. Sorry to get your hopes up with a reponse and no solution but this one is blowing my mind.
A potential cause of this error message is that the standard directory is missing the template files found in:
%SDD_HOME%\standard\templates\DxDesigner\expedition for Expedition flow (default.prj)
and %SDD_HOME%\standard\templates\DxDesigner\netlist for pads flow (pads_template.prj)
Check to see if you have these files within this directory. If the problem persists I would suggest replacing these files with the default template files shipped with DxDesigner.
If this is not the case then it potentially could be an issue with your environmental variables that you have on your working computer. Please clean the variables generated by the older version to resolve this issue.
If you are on maintence and need the template files are still having issues please open a service request on SupportNet and we will help you through this problem.