Is it any more of a PIA the bigger the tires get, or just different? Anybody got a 3-speed for ex. with Big Joes??

I'm gonna be running stock Savage 25 wheels and tires and an Axial 28 on my X SS, and have a 3-speed, but can't decide if I should start with the stock 2-speed and save the 3-speed for down the road, or just put it in right away.. Don't want any extra headaches.. And cuz the shift-points depend so much on the engine, maybe it would in fact make sense to run a gallon through with the 2-speed, then put the 3-speed in later.. Would save having to fiddle with 2 shift points rather than 1 during the break-in process.... Or??