Hi Scott, welcome!

Do you have a sunroof? If so, maybe this will help:
https://www.jeeppatriot.com/forum/5...ep-patriot-general-discussion/50435-easy-free-fix-leaky-08-patriot-sunroof.html

As for the doors being wet inside, how are the window seals?

It's possible to have water leaks around the windshield and cowl:
https://www.jeeppatriot.com/forum/5...om/forum/5-jeep-patriot-general-discussion/4155-patriot-water-leak-poll-38.html

Do you hear any sloshing coming from the heater? If so the A/C drain might be clogged.

Just throwing a few things out there.

 

Hi Sandstone. Thanks for the links and good thoughts. I do not have a sunroof. My mechanic and I are pretty sure it's not the windshield and that makes sense because it's usually the back seat floors that are the wettest. No sloshing and when it happens is when the car is sitting during storms. As for the window seals, I guess they could be an issue because water was easily going between them and the windows and then through the inside of the doors. I'm unsure how much of that can be avoided but it seems possible. At the very least there should be a channel inside the door around the window that directs the water to the weep holes instead of letting it drip. Do you know how they are designed? Thank you again!

 

Not sure on the doors.

When you had the roof rack sealed, was the roof ditch under the black plastic trim checked?
https://www.jeeppatriot.com/forum/36-interior/104209-rear-hatch-leak-fixed.html

 

Did you check this?

It looks like you checked the obvious already. So now look at the not so visible keeping in mind that water flows down and from the outside in.
So, did you check the mirrors, the radio antenna and the cabin filter? All three of these have access from the inside to the outside.
To test I recommend you use food coloring and a bucket of water. Add the coloring and in a dry level place begin pouring the water slowly on the mirror and the antenna area and then have a good look to find the food colored water. Once located, follow the coloring back to the outside. You can also add salt to the water and it will leave a white stain as it dries wherever it flowed.
You might want to pop out the lining behind those support handles if you have them and see what's wet inside there.
Check the firewall area to see if any access to the inside is also wet. There are several hoses and cable guides to follow from outside in.
What about the wiper motor area?
Meanwhile under the floor mats there should be some drain hole grommets you may want to remove temporarily.

 

Hi scottkale, Open your passenger door wide open. Looking forward towards the hinged end of the door you will see a grey foam pad. At the bottom of the door pry up the grey foam a few inches to expose the space behind the front fender. There is likely a pile of dirt and debris built up at the bottom of the inner fender. Using a garden hose and nozzle wash out the build up of dirt and debris. Flush it out well until you see the water draining out through the small slot at the bottom of the fender cavity (Left side of the cavity). Do the same on the driver’s side.
I think what happens is the water that drains from the drain gutter below the windshield runs down the void behind the fender and instead of draining through the small slots at the bottom of the fender it some how enter the A pillar. The bottom of the A pillar fills with water and enters the interior through the slot in the A pillar used to secure the interior molding.
I live in Vancouver and it rains here a ton in the winter. Since I cleaned out the dirt and debris the interior has stayed dry. Hope this fixes your problem!