I had the same noise on my driver side window in my 2012 v6
I took it to the dealer and got it fixed under warranty. There's no noise now.
Also, I took my car in to get the water pump replaced and I over heard a customer talking to a service person. He explained all of the infamous noises that 2011-2014 v6 owners frequently have complaints about and the window click noise that we experienced was one of them. It must be a common thing, I'm not sure what they replaced but I think it was the whole window mechanism.