Be careful with the fasteners on the outer fairing, max torque is only 32in/lbs. If you tighten to much you start pulling the brass insert out of the inner fairing.

 

Check your fairing fir tightness, my 07 was squeaking bad and come to find out it was my windshield top screws.

 

Squeaks, like rattles can drive anyone nuts!

On my 2000 Ultra, I had the rubber muffler hangers that need an occasional squirt of silicone spray.
The other squeak (harder to locate) was the exhaust clamp/hanger over the transmission. I finally gave up and bought a new clamp and the issue was settled.

On my '13 CVO Ultra, I have a squeak in/around the upper fairing windshield.
While driving (and hearing the squeak) I could put a little pressure on the top of the windshield and the squeak would stop.
I pulled the windshield and put a long piece of duct tape across the bottom of both sides of the windshield and I still had the squeak!

I kept searching (while riding the bike) and finally located the culprit!

Two pieces of trim that I had added to cover the face of the radio and to cover the rocker switches near the ignition switch were too close together and were making contact.

Two of my favorite tools for searching for squeaks and rattles are a rubber mallet and a short piece of rubber hose.
One to pound with and the other used as a stethoscope.

 

I started a thread on 09/08/2015 entitled "Squeak". The short story is that I searched for a long time for that squeak. I finally found it when I released the last body to frame mounting bolt in the trunk. I think that the body got rim racked a little bit at some point, maybe when I hit a bump, and when I released that last bolt, everything went back to where it wanted to be. I haven't heard the squeak since then.

 

Thanks guys...so far I have not found the culprit. It seems to only happen when the engine is really hot.