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2nd Gen Ram Tech1994-2001 Rams: This section is for TECHNICAL discussions only, that involve the 1994 through 2001 Rams. For any non-tech discussions, please direct your attention to the "General discussion/NON-tech" sub sections.
This sounds a lot like the problem I had with my pass side door. Water was making its way past the door seal and getting under the carpet. I would find moisture along the seal seam where the plastic sill runs along that seam. I had to replace the door seal to get it to stop.