You need to read up on some brake tech Mike.
Bigger master cylinder = less power but more fluid
You want to run the smallest master cylinder possible, while maintaining enough fluid to fully operate calipers.
Brakes performance is directly related to pressure. Pressure to the pedal is delivered to the mc, which is output to the braklines. A 1" (common jeep mc) will output roughly 1400-1700psi.
Same pedal pressure to a 1.5" mc (dodge ram, ford e350) will only output about 700 psi. You have the same pedal pressure being applied to a much larger area. Therefore increasing fluid movement, but significantly decreasing output pressure.
The only "upgrade" for you is a 95 master and booster combo if you have an earlier YJ. The 95 is the first year of the double diaphram booster, and has more power.
Or you are into big money brake kits, or wj swaps to get more brakes.
If you have an automatic there is a larger booster available off a dakota that will increase pressure by about 25%. But it wont fit if there is a clutch mc present.
If I were you, I'd look for the 95 mc and booster. If you already have that, I would look into your existing brakes and see what the problem is. Stock brakes should be pretty good up to a 35" tire.