thanks for the pics E30cabrioman, it seems I am not alone now in the leaky roof box compartment.
I was begining to think it was my car alone!!
I have changed the seal, I now think a strategically placed piece of rubber would fix it so it looked better, I am investigating putting it on the roof. Hopefully in a couple of weeks I'll have some answers and a completely dry solution.
oneblueleg, the water in the rear of the floor pan, I found that this was caused on mine by a leaky seal on the front of the roof. If you look at the first piece of seal that runs along the drivers window, this on mine had a small slit, but it was filling with water and then spilling out into the car when the door was shut. This slowly dripped down, finally causing a puddle in the back. After glueing the seal back together with superglue, I have had no more problems with it... yet

I've done it now!
