There are definitely some topics covered in the Advanced course which are not available in the FDS. XControls, Source Control integration, complexity metrics and polymorphic VIs are the ones that I can think of. Of course, you could always use an evaluation copy of the PDS to do the course material, but if you normally work in the FDS it might not be worth your time to learn those topics.
Course kits don't come with a certificate, although classroom based courses do.
The course is taught in LabVIEW 8.0 and does utilize LabVIEW 8 specific features (XControls, SCC API, Project API and Project Libraries).
Hope that answers your questions, Ryan King Course Development Engineer Training and Certification Dept. National Instruments