Forum:Ocelot phone call at the end of mgs 3

I don't understand the part where ocelot says the president is relying on us to keep a lid on the whole affair. He's talking to the KGB director. To me, this implies that the KGB somehow knew about the true nature of the affair, which I guess means both the true reasons behind virtuous mission and operation snake eater...how the hell did they get to find out...at least ocelot seems to imply that they know.

This wiki also states the KGB were aware of the true nature of both missions. How?