Nah, with a respirator all you can smell is the rubber in the mask.
I actually love the smell of poly but its so toxic, it aint worth risking it.
Ill give it a couple of days and then I'll assemble the whole guitar, check the clearences, line up and drill the neck and string her up. If everything works ok, then I'll pull it apart again and finish the paint job. I figure now is the time to do a mock assembly as any marks I happen to make will be sanded out before the next few coats of paint.