https://www.wired.com/2014/09/feds-yahoo-fine-prism/
I think it's safe to assume that all companies involved in PRISM aren't happy with it and tried their hardest to fight it.
Also, following your reasoning, if Facebook was a participant in PRISM, does it mean they don't have any right to fight? Privacy is at stake here, Facebook is only one problem instance.
Are you arguing against the use of warrants in police investigations?
What proportional recourse do you suggest when Whatsapp are effectively in contempt of court (in absentia)? In most jurisdictions, obstructing the course of justice usually has heavy penalties.
End to end encrypting doesn't magically cause metadata to disappear. IP addresses, the times messages were sent and received are still useful to law enforcement. In this instance, the court want the IP address of the accused so they can follow up with the ISP.
I prefer warrants written out for specific individuals to dragnet surveillance.
There is something called Civil disobedience (https://en.wikipedia.org/wiki/Civil_disobedience) and surely if you analyze every law system it contradicts itself.