I\'m occasionaly getting the following popup from an AJAX.NET application
Sys.WebForms.PageRequestManagerServerErrorException: An Unknown error occurred while proc
If you're getting that from an updatePanel, set EnablePartialRendering to false in the ScriptManager for the page, and then it should give you the actual error.
Also, if it only happens occasionally, I've found that it could be a viewstate problem, especially when the page goes a long time (20mins or so) between refreshes.
Otherwise, try some try/catch blocks. Those are some easy methods.
Hope that helps!