A reboot fixed it for me, but I suppose it will happen again until I go to R49. Also, I've seen a few people comment on how this ROM runs hotter than others, but I never noticed until today. The upper 1/3 of my phone is considerably hotter than the rest of it. I can even feel it through a few layers of Seidio Silicone. My battery life seems rather low too as if there's a runaway process or something.
Like the idiot that I can be, I forgot to check the time in state pie chart in Kernel Tuner to see which frequencies I've been running at before I rebooted.
Last night, It dropped from 90% to 45% over about 6 hours while I slept. This is with a 3400 mAh extended battery. Today, before I left for lunch, it was in the 90% range again, and by the time I got back, it was at 49%.
It's cooled down considerably in the 10-15 following the reboot.