That nut presses on the BB shell of the frame, if that's somehow affecting your bearings then you had something assembled wrong or broken. Your advice seems to be to just leave it loose, which makes me wonder if you've ever ridden/ worked on a BBSxx bike before. Most people have to tighten that nut with a hammer to keep the motor from rocking back and forth.
Did you read the link you posted? It looks like you were posting there, but the guy who said the bearings were destroyed acknowledged he was wrong on the next page.