The springs are indexed between the lower and the upper spring perches. If you can rotate the springs without turning wheel knuckle, you probably do not have it positioned correctly. I remember when I installed my H&R's a month ago that with top hat installed, but out of car, I could not rotate the springs.
You can correct this without taking it out of car. With car jack up and both front wheels off the ground, loosen the strut top retainer, retainer nut and strut top hat nut, all from top of the strut tower. Your strut assembly will drop enough for you to rotate the spring/spring top perch to let you align up and index it correctly. Then bolt it up in reverse order and you are good to go.