The most secure method of transmitting a message is a one-time pad. There is no way to analyze or decrypt it without its mated random pad. However, for internet traffic, this is horribly impractical. So you use alternate methods with some tradeoffs to achieve security that is practically impossible to attack.
The only benefit to alternate infrastructure is to work around government-imposed sanctions on traditional internet services, such as Iran, Egypt and other countries shutting off internet access. Project Byzantium is one way to work around this.