The right to jailbreak, and the recommendation to jailbreak, are two completely different things. I absolutely support the right to jailbreak your device. But

The right to jailbreak, and the recommendation to jailbreak, are two completely different things. I absolutely support the right to jailbreak your device. But I would never agree to actually jailbreak my own device, and I strongly encourage others to avoid it as well. The issue here isn't that the EFF is expressing their rights. It's the fact that if the EFF releases an iOS app exclusively on Cydia then they're endorsing jailbreaking and encouraging people who don't know any better that they should do this. I would imagine there would be some pretty negative things said about the EFF if they released a Windows application that required users to disable all anti-virus software. That's basically what endorsing jailbreaking is, for iOS.