CJDNS
CJDNS is Caleb James DeLisle's Network System. A new way of routing internet packets. Encrypted content, reversible routes, DDoS resistent. I don't completely understand it, but it looks interesting. Link is to a white paper about the motivation and details of the protocol. Git archive contains an implementation, in C, that is known to work in Debian 6 (Squeeze), and thought to possibly work in Mint and Ubuntu.
A System Is Only Secure When Nobody Has Total Control
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