"These utilities make use of the deduplication scheme of Dropbox__ to allow for "teleporting" files into your Dropbox account given only a list of hashes, provided of course that the files already exist on their servers. This enables arbitrary, anonymous transfers of files between Dropbox accounts."
Between this and the minor information leakage issue I suspect Dropbox will be making changes to their deduplication scheme.
A simple way to fix both of these issues is to require each user to upload the complete file once, regardless of whether Dropbox already has it stored. Deduplication in storage and per-user uploading is still possible.
Also interesting to note is the Github repo for this has been deleted. Tarball of the source is still available.