The fan controllers are normally pre-set with a temperature/fan speed profile by the BIOS at power-up, then the controller chip handles fan speed changes autonomously from that point. I think you're saying that the profile loaded at power-up isn't working for you ? What reported temps and fan speed are you seeing with fglrx ?
The foundation capabilities (KMS, I2C support) required for fan control seem to be mostly in place but not 100% sure about that, maybe one of the devs can jump in.


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