it will be quite nippy once the sun goes down so take a good fleece. I've always wanted to do a balloon flight over the Valley of the Kings at dawn but was never able to; so feel free to do it on my behalf. Visit all the tombs you can, plus Hatshepsut's temple and the temples at Karnak and Luxor. Go for a caleche ride, or a felucca sail. You can also do trips to Abu Simbel, the temple rescued from the river when it was dammed, but it means catching a bus or plane about 3am to see the dawn. Great experience, though.
Don't eat street food, stick to unpeeled fruit and cooked meals and you'll probably be ok (take some immodium in case you aren't). In a decent hotels bugs shouldn't be a problem, or flies at that time of year.