BoxCryptor - Boxcryptor encrypts your sensitive files before uploading them to cloud storage services like Dropbox, Google Drive, Microsoft OneDrive, Box, and many others.
Bashupload - Upload files from command line to share between servers
Cloudfogger - Easy and secure encryption for the cloud. Provides security for all cloud storage services like Dropbox, OneDrive and Google Drive.
BlackHole File Transfer - Blockchain-based file transfer. Designed for everyday use.
Mega - Secure File Storage and collaboration
FilePizza - Open source application used to transfer file via WebRTC and WebTorrent.