It works just fine without either enabled. Auto end of turn happens as soon as all your units moved and all towns are building / training. So if you want to build more things in that turn, you can't because of it.
Auto selection is another thing that I don't like and disable because when I move a unit, I want to instantly asses the situation, and not wait until everything moved then go back on map to find each of them and see what they uncovered etc.
BUT, optional is good So keep the options in, just check em on or off up to your taste peeps.