Oh, yeah that'll happen. But there's no issue with that because our rear springs dont have a specific rotational orientation that they need to "sit" in. They'll re-seat once the suspension comes back down. There's technically no difference between 1/8" of clearance and 1" of clearance as long as they're retained.

This picture was taken with my rear shocks still attached. I pulled down the upper isolator to measure the bump stop mount:





This picture is with the rear extended about 2" beyond where my 27.5" shocks will let the axle extend to. At this point, I would definitly be concerned with the spring coming out!