Downwindabeam, As a former pilot for a US major airline I can assure you flying in this part of the world is safe. I lived in the US for 30yrs and in that time I knew 1 pilot that was shot and killed in Houston and 1 cabin crew killed in 911. I remember reading in the news of a female cabin crew at NWA murded in Detroit and a US Airways cabin crew murdered by her boyfriend in CLT. I am sure there are many more. I don't know of this ever happening in the ME.
When you live in the US you seem to be desensitized to the violence there. CNN seems to make the whole ME look like a war zone which it is not. I have been to all the places you asked about except Medina, I find most people to be friendly.
The 2 overnights I would say are the most dangerous are Lagos and NY, however if you are smart you should not have a problem.