The one difference is that barring a sudden huge string of fillers, this series might only reach 120 episodes or so. For a decent plot to still be made, Plasma will have to appear quite often at this rate.
You forget they might do a filler saga, which while may be filler, could also be something Team Plasma post-leauge. Or be very nonfillery with Ash rotating his Pokemon every other episode or so, with all his Pokemon getting at least some sort of an appearence in the filler saga with some evolutions. That seem fillerish now?