Most people when they find Disqus does not work with Cloudflare due to rocket loader just turn it off. By default its on automatic. There is a solution though.
I have managed to get it working by using the handy parameter
data-cfasync="false" This tells Rocket loader not to touch these scripts. This allows the rest of the site to get the rocket loader benefit without breaking Disqus. Here is an snippet of the Disqus code with the parameter added:
This method should work for any script that causes issues. Flush your cloudflare cache and problem solved!