I've got an RT-AC66U that I just updated to Merlin's 376.47. After updating, thanks to the new UI, I noticed that my router's CPU is sitting at 100%. It's not doing anything unusual that I know of.
How long is it sitting at 100%? Is this right after a reboot?
Give it some time and see if the cpu goes idle eventually. I would do a hard reboot at least once (pull the power while the router is running, wait a few minutes and then plug it back in and power it up).
I wouldn't start by indiscriminately pulling the plug. Log on to the router using Telnet or SSH and run the "top" command. This will show you dynamically which processes are using the most CPU. (When you are finished looking, exit top by typing a "q".)
You may be right with respect to the amount of torrents. I killed Transmission on my router and will just run it on my server for now. Thanks for your help!