Follow the steps outlined in SmartTop install to get to the part where carpet can be lifted. Then try to feel for the AC drain tube (one on each side, passenger and driver) that is just next to the center channel (the drive shaft tunnel), feel only and trace it to the bottom, do not use force or try to dislodge anything. Feel for any leak at the lower portion (usually this is lightly glued, ergo, do not disturb) where it connects to outside channel for drainage.
If the vehicle is parked indoors, use several large microfiber towels to towel dry (as much as possible) the carpet and attached foam. Place some small (water resistant) boxes underneath the carpet to separate it away from the floor pan metal. Use a fan to direct air to circulate and dry affected area (may take several days of dry weathr to get this to a satisfactory dryness). Make sure AC is on even in cold weather and set it at 68F or slightly less, so the dehumidifier is still working.
IIRC Jeff had some mosture due to humid Florida weather and the trick is to set the A/C temp slightly lower than "normal".