Aggregator project and navigation bar not aligned

The navigation bar is cut off in the Aggregator project. It seems the entire slide is moved down as there is also white space at the top of the page. I have set the table of contents in the individual projects and set them to not stretch. I have also tried setting the TOC to stretched but with each the navigator bar gets cut in half in the Aggregator project. How do I ensure these align correctly.

I had this issue too.  What I discovered was that some of the slides in one of my presentations were off the screen.  Some because I had dropped pictures onto a blank slide, and others because I switched background images on recorded slides and didn't merge the images into the existing background.  After fixing those issues and republishing, I put the revised .swf into the aggregator and it worked. 

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