Files converting with no apparent logic

Awesome work on this module!

I followed the justin's excellent walkthough to get everything set up. I've spent a week though, and just cant get it configured properly.

Files upload and convert, but always output the same file types (txt, odt, and zip) regardless of what is selected in the MIME registry.

pdf files aren't working at all, in terms of conversion, either as input or output. This is puzzling, as conversion works fine (via open office) through the command line.

Any ideas here would be greatly appreciated!

Drupal 6.19
application/msword application/pdf settings:
{localhost:8100}cd "[tmpdir]"; {mv} "[in_file]" "[in_file].doc"; {java} -jar {{/opt/jodconverter/lib/jodconverter-cli-2.2.2.jar}} -f pdf "[in_file].doc"; {mv} "[in_file].doc" "[in_file]"; {mv} "[in_file].pdf" "[out_file]"