I'm in general agreement with this conclusion.

When the ball joint wears, it has additional vertical motion........more than desired. However, the natural position of the ball is at the bottom of this clearance, and the clearance is only noted when the joint is fully unloaded against the weight of the body.

Accordingly, the alignment should not change when the ball joint is replaced, unless the joint is worn to the point where there is serious radial wear in the socket........in which case, the ball joint is literally falling out of the spindle.