In my own experience there is some difference in smoothness, at least in STOCK form. Not just smoothness in the engine itself during acceleration, but smoothness in the way the car rides while accelerating. My 94 seemed to be "rougher" when accelerating, not rough as in it wasn't running well, but it sounded rougher, meaner and more aggressive. You got more of a "raw power" kind of feel with it.
My '03 accelerates very smooth in comparison, and sounds a lot smoother too. The car rides smoother too but it'* a completely different body.
But when I threw the intake on the 94, it felt A LOT smoother. IMO I think part of the "roughness" in acceleration was just how the stock airbox setup is on the 92-95 years.