Beginning with the 3.5 version there are some changes in the way Advanced Installer handles the files added to the project. In some cases this can cause the errors you are getting.
In oder to fix the problem, please send us the AIP files of the projects to support at advancedinstaller dot com. We will mail you back the fixed version of the AIPs.
I just sent a message few minutes ago 9h15 Montreal minus 20. Our project is evolving and I need to recompile the setup often so I cross my fingers and wait for a reply from the support.