Sorry, I can't answer your problem specifically, but what program are you trying to mine with? CGMiner does a very good job of managing temps, fan speeds, overclocking settings, etc. And that is regardless of any other tools that may or may not be running. I HAVE found that some tools will battle each other, so having MSI AFterburner, the AMD tools, etc. disabled usually yields better results.
In post:
https://bitcointalk.org/index.php?topic=171747.0 you will find the suggested, following setting for CGMiner in a 2-card setup that may work for you:
-I 7,7 --gpu-powertune 20 --auto-gpu --auto-fan --gpu-engine 800-1125 --gpu-fan 40-100 --temp-target 70 --temp-overheat 82 --gpu-memdiff -150
PS, forum member: crazyates gets the credit for this suggested config.