Basic debugging to help would be to check if google now/search is giving you traffic updates. My phone used to do that and for that it would wake up the phone every minute. If possible disable this from the google now settings. I dont think any app is causing this but that will be evident from the better battery screen as to who wakes up your phone.
About denying wakelocks...for that you need to open settings - there is an option caleld as App Ops
i think it is one or 2 spaces below the apps option which shows installed apps.
I dont have RR installed right now, but as far as i remember, there were categories and the same apps were listed across the categories based on what type of wakelocks they were using, etc. so you just have to select the right one and deny it.
Thanks a million for this very informative post! I am constantly using my phone, so getting the screenshots after no use has been a little tough. I will do that if I start getting too many more 6-10hr days, but I think so far what you've taught me has gotten me just about back to normal. It's given the phone a little more stability sometimes too. But I'm still fighting with that issue (constant freezing and unresponsiveness).
Thanks again, and have a great weekend!