I deal with a lot of HDV720p footage, and the thing I’ve noticed when exporting out of premiere pro is I have to make sure it uses square pixels and change the field dominance to progressive. Also, instead of using h264 try just exporting a quick time file that uses the same codec as the compressor so something like the HDV1080p30 or 1080i60 depending if you shoot on a progressive camera or not.
break out