Protectionist would be funding the Federal government largely with import tarrifs, making others pay for the priviledge to trade in our market.
What we have now is the exact oposite, it is protectionist for everyone else at our own expense. We fund the federal government by taxing our own production, whether they are to be sold domestically or abroad, all while allowing other countries to manufacture their goods outside the jurisdiction of our tax system, and give them access to our markets to sell their goods without their prices having to bear the federal tax burdens like our own products do.
The FairTax levels the playing field a bit, but I don't think you could call it protectionist except relative to our current system.
Unfortunately, the NRST, while leveling the playing field, does so at a disadvantage to consumers.