Elitedreams - Thanks!
Btb - Hips were fine. Nowadays I keep my hips aligned and under the bar, previously I would push my hips back before I initiated the squat, that would pre-stretch my hamstrings and hips and lead to a very tight position at the bottom. So it'd be tougher on the hips. Nowadays I just sort of slot down and rebound when I reach the end of my hamstring flexibility. Which admittedly isn't much!
Stretching for the hamstrings is the next project, I never had particularly flexible hamstrings but they're worse after the injury. Building bigger quads has helped a lot actually and takes the strain off the hips/hamstrings area.