The help file for PureRAW says that edits done in Lightroom will be preserved when PureRAW is called from the Lightroom Plugin. However, it does not mention that it only works in the following two conditions:
File is a DNG
Raw file has had metadata saved to XMP
I wasted an hour trying to figure out what the problem was (I don’t normally save to XMP) due to this simple lack of documentation. Before I found the solution I sent a question to support which still hasn’t received a respone. You could save your users a lot of trouble with this simple change, which would take about 2 minutes.