We typically use a term called MARSA (Military Accepts Responsibility for Separation of Aircraft).....ie we are either working with one another or in comms on the area common freq for the particular R area in question. Generally the controlling agency doesn't care what we do as long as we stay within the lateral and vertical confines of the airspace. It is extremely common to punch through cloud layers while technically "VFR" in these areas.....we do it almost daily. So I would say that as long as you are cleared into the airspace, are a participant, and are briefed on what is going on, you probably don't need to get too worried about the cloud clearance rules. Just use some common sense, and your radar if you have one, and of course if weather is truly a factor, make sure you know the minimum safe altitude for where you are flying, lest you find a cloud with a rock in the middle.