we booked the trek through amazontrail peru in advance for 2 days. we asked them if we could add macchu piccu and they organized everything for us. we were hiking for two days and slept in a tent in huchuy qosco. the whole trip was great, we had a really competent guide, our cook was fabulous, the views were great and it was fun sleeping in a tent, altough it got pretty cold (you need sleeping bags!). At the third day we went to Macchu PIccu, after they organized a private driver to take us from Ollantaytambo back to Cusco.
I can only recommand them, if you want a specialised tour, just ask!
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