I'm using W3TC with a CloudFront account.
If I deactivate, delete and then re-install W3TC , my hostnames will be correctly replaced with the specified CNAME I provide it.
But then after a while I notice that the hostnames are no longer being replaced, I tried clearing page cache and all that wonderful bits, but I can't seem to make it stick, eventually I end up having to deactivate, delete, and reinstall again just to get the hostnames changed.