Jim, I went in to look at the Layers. I have to say I don't know much about the layers but I know I started the drawing from scratch and some of the boxes that are missing were copied and pasted all at the same time. Some of them show up and some do not. I would think if it was a layer problem all the boxes I copied and pasted would either be there or not be there. As I said I am new to layers so I may be wrong. I did go under view>Layer properties and checked all the boxes under Active and color. The only boxes left unchecked was "Lock". Then I went and saved it as a PDF again. The file was still missing all the same parts.

I saved it out to a DWG and DXF. The problem with doing that is I lose all my colors so some items like servers don't show up. That will get me close enough to redraw if I have to but they really want the finale product done in Visio. I appreciate all your help.