depending on the quality of the cone and adapter, you may have had slight losses on the inlet to the AFM. If you look, there's a small velocity stack style transition between the air filter area and the AFM on the factory air box.
Realistically, it probably changed nothing. Cone air filters don't really do anything, they're better at letter more dirt in than air (unless the factory air filter was seriously undersized).
Engine masters did an episode where they tested 19 different air filters and found that the *best* combo was the K&N filter top attached to a big ass salad bowl! That's right, just the top, not the whole K&N filter.