I now have the simulator installed from scratch, as I have unfortunately received no answer from you.
I replied several times, but about the lights issue, I can only say I can't replicate the problem. Nor anybody else has reported it.
Now I have the lights again.
That would indicate the problem was some kind of wrong setting or a problem in the installation of the sim, not a problem of the scenery. Which explain why nobody has reported it.
Only now the problem is that the lights seem to float over the runway.
They are supposed to be raised, otherwise they will flicker and, except for the centerline lights, they are raised from ground even in reality. But in order to prevent flickering, even the centerline are a bit raised from ground.