if you are using futaba Zap then you set the ATV first 140% is the max and probably to far as the servos are not always centerd correctly (futaba) and you will hit the mechanical stop one way. ( I use the sub trim to move the servo back to its true centre. you can then adjust even further with the AFR function so its easy to overthrow the servos and burn them out. I always set the servo so that it is one "notch" back from the mechanical stops with a true centre then never change them. the linkages are then set as Doug quite rightly says although all of my 3D planes are set with a 1-1 ratio making sure everything is strong and the geometry is correct.

Dave