No, you would be nowhere near the Columbian problems. I did the Inca Trail with the girlfriend 2 months ago and Cusco felt remarkably safe compared to everything you read. The biggest annoyance was that it rained for two solid days during the trail and I didn't take suitable clothes, but it was...
Just go. I always read the "dangers and annoyances" with trepidation but have never had any problems, loved it all and have survived Buenos Aires, Santiago, Montevideo, Cusco, La Paz, Rio and even Sao Paulo (although to be honest it did feel dodgy there!). The atmosphere at football is great if...