Can't really think of a way using my method, unless scripts are edited to include dates. The folders are created dateless by TOSEC_folders.bat, then the TOSEC_move.bat moves the dats to the folders with the appropriate name.
RomVault is just designed to replicate the structure it finds in the Datroot. So if you present it with a structure that includes dates in dirname, it will rebuild everything this way. But I can't think of any easy way to replicate this structure without editing the .bats. Probably task is dead easy for a coder, but I am not one...