The video was shot on a DSLR and the codec is H.264. The dimensions are 1920 X 1080, frame rate 29.97.
The logo was a .psd file and the codec is Planar RGB. The dimensions were 1675 X 655, 29.97fps. I created a wipe effect using a solid color to fill the rest of the frame.
When I encountered the problem mentioned above, I created a Quicktime movie of the wipe effect/.psd and then brought that into my project. The info on that QT is 1920 X 1080, 29.97, H.264.
I did render the effects before exporting. I really appreciate your help!