Don't forget that full flaps is a very high drag and very poor L/D ratio configuration for the plane to be in. By raising flaps the increase in tire grip for breaking is offset partially or entirely by the reduction in aerodynamic drag. There will be a speed threshold somewhere that will mean fully retracted flaps provides more breaking than full flaps, but don't forget you have to transition from fully extended to retracted giving you a spike in your L/D ratio. Remember that takeoff flaps setting gives better L/D ratio than no flaps at that speed and AoA.
All of those things changing during landing does not lend itself to smooth, predictable, and easier controlled deceleration. Plus, as others have pointed out, retracting your flaps partway through a landing distracts you from your task at hand, and for limited or no benefit or even, worse breaking performance.