Sounds liked something I recently ran into after upgrading from 6.3 to 6.5.1. The fix was to clear cache and cookies in the browser and search took right off. However everything else with the exception of the search app was working for us, so given what you originally posted I am not sure if we're having the same issue. I worked mine out with support and apprantly this is a known bug that tends to happen when going through the upgrade process. Hope this helps.,
... View more