Release Candidate 5 is now available. Thanks to one of our beta testers for suggesting this new feature.
RC5 adds a new advanced option: By default AE saves disk space and time by exporting a single original file even where there are multiple versions derived from it in a single folder. However the metadata picked for the original is from a random version.
By selecting this new option, a separate original file will be created for each version.
Upgrading to RC5 is easy right in Aperture Exporter. Simply use the AE menu item Aperture Exporter, Check for updates.