I haven't read every response in this thread. However, I patiently waited for the official OTA JI6 update, and now that I have it my battery life has actually dramatically improved. Prior to the update, my phone would die overnight with no use, just while I was asleep the battery would be used up. Now, after the update, I wake up and my battery indicator is almost the same as when I went to sleep.
I use *#*#4636*#*# to verify my battery level, temp and time since last boot, and sure enough I'm getting greater battery life, especially during idle.
Maybe applying JI6 without waiting for the official OTA is the reason you guys are having problems? Could it possibly be that you guys didn't get a full, complete proper JI6? I don't know, just throwing out an idea.