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We also have a 2006 Jeep Commander with water leaking issues. But we do NOT have a sunroof. Have owned the vehicle for many years without problems, but now the passenger side foot well fills with water after a hard rain. It reeks of mold/mildew. The smell is almost unbearable. Even if we miraculously fix the leaking, I don't know that we will ever get rid of the stench.
I saw the video posted above for Commanders with a sunroof. Wondering if there is a similar hack for fixing the leak on Commanders without a sunroof.