you need to make sure the steering rack is sitting flat (the track arms) if they are not the movement up and down while your driving will alter the arcs they work in to alter the geometry.
aim for flat steering rack - flat lower wishbones (ie parrallel to the floor) take that as a starting point.
basing a cars geometry and handling around clearance to the floor isnt first priority.. firstly it has to drive! secondly it has to clear - if it doesnt then the engines too low - lift it.
i would recommend reading 2 books -
alan staniforths race and rally car manual
des hammill - how to build and modify sportscar and kit car suspension and brakes
some good diagrams and theory in there - and probably the best books iv read on the subject