Upvote:2
You shouldn't have too many issues getting to JFK via points North - your route doesn't really intersect with any of the main routes into Manhattan, which is where the NYE traffic will be headed for the most part.
That said, you may want to take the Throggs Neck instead of the Whitestone - check traffic while heading south on 1010 or 880 or your resource of choice, but I suspect Throggs Neck->Cross Island->Belt will get you to JFK a bit faster if you're coming south along 95.