--separate thought--
I actually haven't thought much about the legality of the Feds running JS on a visitor's computer. I never had any issues with it, even being a complete psycho-libertarian in the extreme. I understand the wording of this particular ruling is distasteful but ignoring that does running JS on a visitor's computer need a warrant?
I'm still pondering it but it seems similar to the Feds busting a store that was a front for selling drugs and then tracking everyone that went in that store.*
The analogy isn't perfect because in the computer case they are actually planting a "bug" in private property (assuming our personal computers are still considered private). Whereas in the drug case the Feds could simply follow these people to their homes and then they know their address.
The analogy can be made better if the Feds put a tracking device inside the drugs that the visitors to the "drug store" purchased. These people then are carrying the tracker into their own home, unbeknownst to them. Similarly the web surfers accessing the compromised site are downloading a tracking script onto their computer without realizing.
My intuition tells me that we want the Feds to need to get a warrant to deliver JS to visitors of a child porn site but not to get a warrant for each individual visitor.
I would be quite interested to hear people's thoughts.
* The use of this fictional scenario does in no way imply my support of the U.S. government's policies on the legality of drugs nor imply recognition of said government's ability to determine this for individuals. :-p