don't have any idea if this is related, but my passenger side was flooding with water every time it would rain. It was coming from a hole in the body behind the kick panel, draining down from somewhere. It appeared that it was supposed to be filled with foam, but apparently it had an air pocket or channel that did not get sealed. Anyway, I took a can of "great stuff" and sprayed it in the hole until it ran back out, and wa la, it was sealed off with foam. Hasn't leaked since.
Reason I mention this, is because there is an identical hole on the drivers side, but mine was sealed off correctly on that side. But if yours is getting wet without rain, I would say this is not related.