With CryptoFS 2.1.0 exists a possibilty to restore orphaned directories. The only downside of this method (and also other health fixes of Diagnostic Results) is, that the for the fix important dirId is not present by looking only at the encrypted vault structure and hence all files inside the orphaned dir need new, arbitrary names.
After implementing #47, this problem can be solved by storing the directory ID within the dir node itself, simplyfing the retrieveal if the dirID and making also more fixes possible.