We have several web applications (converted from VS 2003), each with multiple web application projects.  When we add AJAX controls or update Crystal reports in a sub project, the designer "helpfully" adds the web.config file to the sub project.  When dragging a new control into a project for the first time, this isn't too bad.  We check the new web.config, copy the relevant information into the application web.config, then delete the web.config in the sub project.  When trying to use the designer in an existing application, this is a pain. 

Any work-arounds, other than always using the markup view, instead of the designer?