Hello, I have a 2014 JSW TDI with the pano sunroof. I was driving around today and heard water splashing around in the back. So when I got home I opened the spare wheel well and found it about 1/2 full of water. I already shop-vac the water out and have it drying now. I was looking for some advice on how to fix this issue. Any help is very appreciated!
I had the exact same problem after I bought mine, heres what I did to fix it:
First, remove the rear wheels and fender liners. In the back of the wheel well are the little rubber nipple drains for the roof drains. Cut the little tip off (from the factory it has a tiny slit, and its just not enough) and stick a screw driver up in it to clear out the line. When I did this a ton of sludge came out. This will let the line drain from the bottom preventing water from sitting.
The other problem is a factory defect, VW glued the drain fittings together, and in hot climate like Texas they just melt and fall apart.
The way I fixed this was by removing the trim around the trunk at the back of the headliner, the pillars in the back, then carefully pulling down the back of the headliner. Disconnect the rear dome light, then pull the headliner down a little more. At this point you will be able to see the back of the pano moonroof assembly. On either side you will see the drain lines, one side is yellow and the other is green. The connectors at the top of the lines are a white color will either be loosely attached or not at all. Because you said it was just in the spare tire well, they are still attached. When they are attached but leaky, they will drain just fine until the lines get clogged at the bottom. Once they are clogged at the bottom the lines fill up and overflow at the top, running behind the pillars and ending up in the wheel well.
The first time I was in there I glued the lines back on to the drains, and this lasted one summer season. The next year I cut the hoses off, went to Lowes and bought sharkbite connectors, hose clamps and acrylic tubing and rig up a better-than-OEM system. I have had 0 leaks since then.
Link to Photos
Let me know if this helps! I notice you're in Beaumont, if you want help let me know.