Paul, the ballooning should cause the plane to pitch up. The purpose of stability in a plane is to keep realigning the plane to point into the headwind. If the plane balloons upwards due to an increase in lift from flap, the tailplane sees a more negative angle of attack and pushes the tail down more so that it points the plane up into the new headwind. This will be opposed by the nose down pitch of the flaps but the net effect will be whichever force is stronger - usually the tail due to its greater lever arm.
The goal should be not to balloon at all, by getting the airspeed down, lowering flap slowly, and reacting with pushing or pulling the stick at a rate to counter any tendency to change flightpath.

Harry