Yes (short answer), and I adjust my windshield regardless of the speed (not exactly true, but I generally ride w/ the windscreen up all the way above around 55, and down below that speed. So yes, I do move the shield while the bike is moving. After 4 years of ownership with no problems at all, I'm pulling the tupperware to clean and lube the raising and lowering mechanism. I have a Calsci windshield that is wider and taller than stock.
On second thought, perhaps I should have asked how large your new windshield is? If it's a 4' x 8' piece of plexi, then the answer has to be a qualified 'maybe'.