I've seen that my cgminer Elapsed time needs to be reset if the miner is down for a period or else the downtime is averaged into the hashrate.  I usually have an ssh session open to each miner and run a short shell script with /etc/init.d/cgminer stop && sleep 2 && /etc/init.d/cgminer start which resets the Elapsed time to zero.  Is there a Run command accessible from the GUI such that I don't need to do the restart from an ssh session?