[V6-12v] 95 A6 quattro wagon minor issue

[beattyr2003 at cox.net]

Couple of problems that i have been unable to solve as of yet with my ex's 1995 A6 Avant.

1.  Water accumulating in the spare well.  The car had its hatch replaced a few years ago after I closed it normally and the window shattered on me... yeah that was a good weekend heh.  I did not install the hatch, we had a local glass shop do it.  So it keeps leaking and finally the last time I saw the car, I drilled some holes in the well to keep the water from staying in the well and rusting everything.  However, there is still moisture accumulating underneath.  I did discover some corrosion at the base of the window above the windshield, that I filled and sealed, this was last summer.  I figured that would solve the problem.  It hasnt.  The seal all around the hatch appears to be in good shape and I am at a loss as to where to look next for leaks.  Does anyone have any btdt for this?  

Thanks!