Yeah, that's why i don't have a bbs02 anymore.
I have tibial torsion, which means that one foot points outwards 15 degrees, which means that i have had an abnormal wear pattern on my cartilage since birth. This is due to a naturally twisted shin bone.
Pedaling the bbs02 hurt since day one.
I've noticed that a majority of add on mid drives just put the right pedal out by 10mm, which is enough to potentially create muscle inbalances over time ( if you have bad knees, you likely already have unbalanced leg muscles ). I had my first major episode of patellafemoral syndrome after riding the bbs02 for a month.. and that landed me in physical therapy.
You will need to look at aftermarket cranks. For some reason, most aftermarket cranks i tried had a tendency of coming loose during riding. Something about how the bbs02 drive axle was machined..
Let me know if you find a solution, i'm curious.