This is a curious article, especially given its conclusion.  I do not believe that the FBI has been restricted in any significant way by this ruling.  I simply believe the warrant process has been better clarified.  There is and will continue to be a mechanism for this type of data collection by law enforcement in the US.

https://nakedsecurity.sophos.com/2016/04/21/judge-tosses-evidence-obtained-by-fbi-malware-planted-on-dark-website/