... I'd run some Seafoam through them if it does run after the plugs.
also, these bikes are known for being next to impossible to start if the plugs get fouled. i bet it will fire right up after you get the new plugs in.
on top of draining out the old fuel for new fuel and the plugs, i would also do a oil/oil filter change, new air filter, rad flush (make sure you use non silicate containing antifreeze when you refill). giving the entire bike a once over wouldn't hurt either. bringing back a bike from 2 years of storage typically isnt that hard to do assuming it was kept indoors, but its allways a good idea to start with fresh fluids so you at least know where everything is at.