Earlier quoted context omitted.
I think this is above anything spacex would need to be told about. Spacex is the delivery driver. They need to know where the sat is going, how much it weighs, and a bit about its needs. They dont need to know what the sat is actually doing, let alone how that function ties into any larger programs.
But they need to know if sat is hazardous and/or radioactive, or what risks it posses to their vehicle.
And as a Plan B - any satellites filled with secret sauce could easily be babysat (while in SpaceX's hands) by trusty USSF TSgt Top-Secret, who's been trained in what to do if things go horribly wrong.