So I finally figured out how water is getting inside my passenger side door. It is not from the bottem up. The drain plugs were removed to let the water out. I had a feeling gravity would not let that much water in from that direction. Instead my door itself is bowed out away from the window just enough to let water slide down the window into the door, but not enough to see unless you really look for it. I'm trying to attach some pics to show you. It is sad that it took a huge tree branch falling on the hood of my car for me to notice this.. ;(
