These are just a collection of notes on encryption in NTFS. - System files cannot be encrypted. Check the file attributes and if FILE_ATTR_SYSTEM is set refuse to encrypt. This also means can sanity check that FILE_ATTR_SYSTEM and FILE_ATTR_ENCRYPTED are never set together. - The desktop.ini file in each directory has a setting which can disallow encryption of files in it. The section name is Encrpytion and the key name is Disable. - Everything in %windir% except for Profiles directory is not encryptable as it is considered a system file.