I am on Mac running Lion, with fully updated Scrivener.
I am having a problem with removing comments in compiling. I am compiling for RTF. When I have both the “remove comments” buttons checked in the compile window, the resulting RTF sometimes has comments, and sometimes does not. Very strangely, it depends on the setting of the grayed Export to RTF option. Specifically, if Export to RTF as: is set to Margin Comments, then the comments do not export. But, if Export to RTF as: is set to Endnotes or Footnotes, then the comments show up as either footnotes or endnotes. This is very strange, since it should not matter how the comments are to be exported if the comments are to be removed.
I discovered this odd phenomenon by unchecking the remove boxes, selecting an export as option, rechecking the Remove boxes, compiling, and looking at the result in Word 2008.
I have found a way to get what I want, so this is not a huge problem, but it seemed strange and I thought you would be interested.