A brake fill effect minimization function for preventing or reducing brake controller windup during a brake fill condition or the like that may commonly occur in hydraulic or electromechanical brake systems, particularly during initial application of the brakes or during anti-skid conditions. The function temporarily reduces error input to the brake controller during a perceived brake fill condition (hydraulic brakes) or running clearance condition (electromechanical brakes) thereby facilitating smooth application of the brakes during initial braking and/or under anti-skid conditions.