Ever since the Egyptian civil war, the number of backpackers have significantly dropped. Most of the tourists who visited Egypt during my time there, came in big Chinese tour buses (with some Russians as well).
However, if you plan on backpacking through Egypt like me, it is definitely doable. Getting around is actually not that difficult, once you know what options are available.
Whether you want to see the Pyramids of Giza, or the Valley of the Kings, here are the best ways to get around Egypt, based on the perspective of a backpacker: