I do not know much about Cloudflare. It was my impression that they were a legitimate business on their own right. They very well may have a partnership to protect CIA operation digital assets, or partner with other departments for other purposes (protecting US assets during the cyberwar). This in itself would not imply that they are a 'front', just a partner. To claim a front you would have to have some reason to believe that CloudFlare was infiltrated by, bought by (like Condolezza Rice at DropBox) or started/managed by a gov't agency.

I would not claim to believe that they are a front or a partner. I'm not a good person to ask though, I don't know very much about CloudFlare.