This quote from an AP story on the reshuffling of SCAF (because some of its members have become ministers) and the creating of the National Defense Council (a body combining civilian ministers and generals) is very telling of the state of civilian-military relations in Egypt:
Retired Maj. Gen. Abdel-Rafia Darwish, a military analyst, said the reshuffling of the council prevents the president from interfering in military affairs.
"What if the president is a civilian?" he asked. "He might take a decision that is wrong and that could harm the military." However, other experts described the changes as no surprise and in line with the new constitution.
In most other places, of course, the conversation is more about protecting the civilians from the military.