I got the PDFs, thank you. Unfortunately, I have attempted copying from several locations in both PDFs, and am experiencing no formatting problems. I'm afraid this is going to come down to some very specific set of circumstances, of exactly what operations you are performing in what order on what exact section of content.
So I think the only possible next step is that I will need a screencast that shows you going through the exact steps to receive bad behavior. I don't think a detailed writeup will be enough, as every single nuance will end up mattering.
In some ways this is not surprising. If it had a straightforward reproduction case, we'd be getting identical reports from many people any time they tried to do simple formatting.