There is a weatherstrip on the outside of the windshield and money says that when they replaced the windshield that they didn't fill the holes with the plugs or silicone.
Wet driver's side floor (under mat)
Page 3 or 4 has the pics
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2006 Limited V8
FJ coils all around - Bilstein 5100's set at 1.75 - Icon Rear 2.0 - Daystar 1.5 rear spacer -
Customish' end links - - LED interior upgrade- GROM audio blutooth unit- weathertech floormats -Spidertraxx 1.25" Wheel Spacers Michelin LTX AT/2 275/65/18