I have done internal rods on both femurs, due to nail complications i have had 4 rods and a 30cm plate so far...
My experience is not directly applicable to your (Tibia CLL) situation, but i did have 4 nails inserted through knee so there maybe some overlap in our experiences RE knee pain.
I agree your XRay seems to show some misalignment in the lateral view, I am not sure how this will impact you long term (probably not greatly tbh), but at the moment i agree it maybe causing short term pain.
After one CLL surgery I had strong knee pain when flexing the knee for 2 years (max 120 deg flexion) , my Doctor insisted my knee pain was due to a torn meniscus and was permanent and would not improve - eventually I organised an Oblique XRay and found he had inserted a too long nail and it was impinging on a tendon, I had the screw removed and my knee became pain free and I now have 135 deg knee flexion - moral of the story is that this is your body, and there is nothing wrong with obtaining a second opinion.
Maybe before your bone has fully fused it is best to get a second opinion now about the lateral tib/nail alignment - and try to obtain Lat/AP/Oblique Xrays to identify screw placement more accurately than the standard AP/Lat view.