thanks so much for the manifest.xml
just tested whether copying with rsync works (see the discussion in the previous posts) - another solution.
It does work, also on windows. On windows, unlike copy, rsync overwrites files with a name in lowercase by folders with the same name in upper case. So it is possible to 'sync back' from the memory card to the pc (deleting the original pdfs, replacing them with folders with the same name containing the same pdfs created by the iLiad). I need to test this a bit more, but I think this is a solution to the windows related problem.
rsync is in the cygwin package (unix emulator),
http://www.cygwin.org