Yea I removed the 2nd set of brake handles as I had no interest in them and I also replaced all the stock components with the Ultegra from another bike, but running 105 5600 series double STI. I've adjusted the front fairly tight and I noticed today, 175 miles in, the clicking noise, while still there is not nearly as prominent as it was. I have ordered some stiffer wheels, Boyd Altamont's with Disc hubs, so in the low chance of wheel flex, that should take care of that. Existing wheels look fairly solid,Hubs good, spokes feel good and wheel is true. Bike came with the allen key skewers and they are tight.

I am thinking about replacing the brakes with the TRP Spyres down the road if I don't like the vibe of the BB5's, but like I said, they seem to be less noisy today, so maybe that is a good sign and it is not like I am riding mountains here in NE Florida where the tallest thing around here is a 109 ft bridge.