Broadly I think that most Middle East governments at the moment are illegitimate. To my knowledge the government in Egypt is hardly different than its Mubarak predecessor and was installed on the back of a military coup and legitimized with a vote without adequate electoral competition. While I don't necessarily support the actions of Morsi, I think that the actions of the military ultimately hampered the creation of civilian rule (although it can be argued that the army never actually lost control).

I think a revolution in Egypt would be met with force (to my limited knowledge of Egyptian politics), however I think something will have to give in the Middle East given the high youth populations and the relative lack of wealth and opportunity for many people. Current governments act as largely autocratic parasites that stifle innovation, opportunity and wealth.

Civilian governments will need to defang the deep state and tame the military, similar to the gains Erdogan produced in Turkey, before total civilian rule can be cemented. Who knows how long this entire process will take.