His dad was a scientist developing the Warp 5 engine, so I'd guess somewhere which either has a major STEM university or a research lab. Some options would include:
Ithaca- Cornell University
Rochester- Rochester Institute of Technology
Rome- US Air Force Rome Lab
Syracuse - Syracuse University
Those are some pretty solid options. I like the idea of Ithaca. Cornell is a good school. Plus, it would be weird if Captain Archer had a Rochester accent