Hmm, I mean to integrate it a little differently, without using jQuery safe mode. Usually You also needs a lots of plugins that works with jQuery, and some of them probably will not work in safe mode.
There should be no conflict and functional duplication, I suggested to include only the 'lang.js' part of Prototype (without it's DOM and AJAX parts). Take a look please at the link below, it seems that it's possible to include only lang.js or I'm miss something?
