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Depends on your gaming. I can tell you the pro controller outperforms the joy-cons when focused on traditional gaming feel and originally I was not into the pro controller (thought it was bulky, but ended up pleased after using it). But the joy-cons can still get the job done like with Mario Kart.
If you play mostly alone in person, pro controller is a win: cheaper and just for you.
Joy-cons if you plan to have company over and more than 2 players. Or if children will be playing, since the side-ways joy-con are great for little hands.
I have both a second set and the pro-controller. That's the best of both: you still get your pro-controller but you have enough joy-cons to handle 4 players.