https://static.jboss.org/theme/js/magnolia/allinone.js is prepared for Magnolia and therefore might not work well for you. Some of those JS files require HTML to be included in the page and, I'm guessing here, otherwise they break. Since you've placed search.js last, the JS runtime might not even get to it. Nevertheless. I saved your production page http://jboss.org/jdf locally, added reference to search.js after jquery and the search started to function. So, give it a try. Maybe it will work also for your development version.
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https://static.jboss.org/theme/js/magnolia/allinone.js is prepared for Magnolia and therefore might not work well for you. Some of those JS files require HTML to be included in the page and, I'm guessing here, otherwise they break. Since you've placed search.js last, the JS runtime might not even get to it. Nevertheless. I saved your production page http://jboss.org/jdf locally, added reference to search.js after jquery and the search started to function. So, give it a try. Maybe it will work also for your development version.