The torsion bars should line up when the LCA's are hanging. Do you have poly strut rod bushings? If the front nut is tightened completely and you have poly bushings, that might not allow the LCA to hang enough. That's just a guess. The LCA nuts should be loose until the car is on its wheels. Only tighten down the LCA's after the ride height is set...you may tear the LCA bushings otherwise.