Ed called AEM to ask about that by-pass valve for his Brute Force intake. It turns out they do not make it in a size large enough for his intake tube and they advised that (and it makes total sense now that I think about it) it wouldn't really work due to the configuration of intake on the JK - basically if the filter is submerged most of the intake tube will also be submerged. Bummed that it won't work out!
Bummer - seemed like a cool idea