An electronic device implements a method of encrypting directories of a file system. A processor receives a request to access a directory entry of a file system, and identifies a user who is logged into the electronic device. The processor determines whether the user has access to a directory encryption key associated with the directory entry and, if not, identifies an encrypted file name stored in the directory entry, and determines whether the encrypted file name complies with one or more naming rules. If the encrypted file name does not comply with one or more naming rules, the processor applies one or more functions to a file name associated with the encrypted file name to generate an encoded encrypted file name that complies with the one or more naming rules, and causes the encoded encrypted file name to be displayed as a representation of the directory entry.