In "all" my dealings with Iceweasel, especially the ones with the java needing to be enabled messages, it has always "100%" of the time been Noscript or Adblock. Both of which can be disabled temporarily or permanently depending on the website your at, and whether or not you personally "trust" the site your on. I generally disable it for that page and it corrects all issues. However, I'm a little 'trusting' of Linux in that it is pretty reliably safe when it comes to malware and spyware and such. So, that said, I generally disable both for the site that is giving me that message and enjoy what I went there to enjoy. TPB is a prime example of this!
Now back out to continue building my "Ark" as we are being drowned in a deluge of biblical proportion up here...