I have a 43 foot black thunder, The center drive is aligned square with the stern with the boat, the two outer drived are aligned 1" out out of square towed outward with shorties now producing a dramatis rooster tail. Am I hurting anything?

Tow should be set to about an 1/8 inch for best performance.

you are wasting a little fuel with high amount of toe-out. oh, that's right, you have 3 engines. you are used to wasting a little fuel...

besides the lack of top end speed and poor fuel economy, is there any thing else I should be concerned about in the way of possible mechanical issues or safety? Maybe to increase fuel economy and top end speed, should or can, the two outer drives add additional pitch to the props?