I added support for command-line arguments and shell / explorer integration to the 1.1. / unstable branch of the project. (Well, Michael Elsdörfer wrote some code to get this started and then I added some more.)
These are documented at http://mp3diags.sourceforge.net/unstable/298_config_shell.html and http://mp3diags.sourceforge.net/unstable/310_advanced.html.
Here it would be a good place to make suggestions regarding these features, if you have any.