Grabbed a roll of 1/2" green 3m painters tape, taped off the upper door frame as well as the cab a-pillar with a couple good layers, and broke out a razor blade and some 800 grit sand paper.
Yes, I shaved the outer door seal foam flap...
..because guess who just solved the source of the annoying wind noise (whistle)?
I just took it for a test drive, no more noise. So then I sat one of the kids in the driver's seat with a towel over her and the console and took the fire nozzle and hose to it. Zero water intrusion.
*You cut your finger open, off, or scratch your paint, it ain't my fault.*
Step(s): Tape everything that is metal and has paint off, following the body curves. Put more than one layer down to reduce the chance of a major screw-up, then you back cut (slice/shave) the upper foam flap so it will just sit under the edge of the cab's a-pillar. Go back and put another layer of tape around all the upper door edging and back-sand the foam to re-create the bevel and clean it up more.