I always re-torque my wheels after I lower the car, have done for the last 35 years.
Just out of curiosity I looked it up in the shop manual (for the W126) and it states "lower the car and tighten the wheel bolts."

There is no way that re-torque wheel bolts can affect the geometry of your car. There must be something else wrong.

ROb
I would suggest to have your suspension checked and your car properly aligned by someone who has experience with Mercedes.