FYI ,there is a thread already started. Search 2016 Tacoma window noise.
Here is a quote.
"I have a 2016 Limited with the same noise. It sounds like wind and it is very noticeable between 3-45mph. I had it in the dealership and they test drove another vehicle but it was not the Limited. It also had the noise. They checked with Toyota and they said it was normal. They made a case report with a case number. Hopefully others will do the same and something will be done. On the web site Tacoma World I found several others with the same problem. I am keeping a log of everybody that has this problem and maybe as a group we can get something done. We paid too much money to have this problem. I do not buy that it is normal.
Right now everybody that I logged in has a vehicle that was built in Mexico. That would be interested because we could isolate the problem to one location. If your VIN begins with 3T then it was in Mexico.
If you are interested you can e mail me with the following information and I will add you to the list. You can e mail me your VIN number, type of Tacoma, your e mail address for contacting you, and your name (first name is fine for now).
You should also bring your car in and have them check it out and make a case report. I sent some guys a copy of mine so they can show their dealership.
I tried to list my e mail but it said I cannot because it is a link. I am going to write it in a different format. If you have a problem reading it let me know.
bob050346 at gmail."
Bob