internet explorer defense+ alerts

I recently updated CIS from 3.14 to 5.x. The first time I tried to use internet explorer I got literally 100 defense+ alerts for IE wanting to modify protected registry items. What did I do wrong now? I don’t get any alerts when I use Firefox. What settings did I not use correctly. Doesn’t CIS recognize IE by default? I have always used the “Paranoid” setting with the previous versions of CIS and did not have this headache.