Autodl2 is a simple to manage and extensible file transfer system that can be configured simply using a configuration file. The system is designed to be lightweight and handle multiple file transfer protocols. Currently only SFTP is supported, though other systems can be added via a plugin system.
rsyncbackup is a handy tool for scheduled backups using rsync. rsyncbackup lets you easily setup multiple source folders and destinations, both locally, on your iPod or external firewire disk, or at a remote destination using ssh. rsyncbackup has no GUI, but is based on editing configuration files. The script is meant to be run in a crontab, so user interaction is not neccesary. Basic terminal skills are required to use the program.