Rename App.config to BulkFileEncrypter/App.config
Rename Properties/AssemblyInfo.cs to BulkFileEncrypter/Properties/AssemblyInfo.cs
Rename BulkFileEncrypter.csproj to BulkFileEncrypter/BulkFileEncrypter.csproj
Rename CommandDispatcher.cs to BulkFileEncrypter/CommandDispatcher.cs
Rename CommandLineParsing.cs to BulkFileEncrypter/CommandLineParsing.cs
Rename DirectoryDigger.cs to BulkFileEncrypter/DirectoryDigger.cs
Rename EncryptOperation.cs to BulkFileEncrypter/EncryptOperation.cs
Rename EntryPoint.cs to BulkFileEncrypter/EntryPoint.cs
Rename Hashing.cs to BulkFileEncrypter/Hashing.cs
Rename FileEncrypter.cs to BulkFileEncrypter/FileEncrypter.cs
Rename IOutputHandler.cs to BulkFileEncrypter/IOutputHandler.cs
Rename StdOutHandler.cs to BulkFileEncrypter/StdOutHandler.cs
Rename TopLevelControlFlow.cs to BulkFileEncrypter/TopLevelControlFlow.cs
Rename Util.cs to BulkFileEncrypter/Util.cs
Update BulkFileEncrypter.sln

Path to .proj file changed
Rename packages.config to BulkFileEncrypter/packages.config
Update BulkFileEncrypter.csproj

Update paths to external DLLs.
Update text file locations