Personally, on our first trip there we prefered Fez to Marrakech (although the main square and surrounding area in Marrakech is fun - but touristy). If you get a little extra time try to spend a day / night in Chefcheoun - a lovely and lively little town in the mountains. Campsite just above the town, hotels in town.
Otherwise, the more time you can spend in / around the Atlas the better - superb.
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