Yeah man - I would definately call that one a warranty issue and have another try at your dealer by showing them that video (and letting them know where they can find it on Youtube!). It sounds like your seal was compromised somehow.
And Vaseline - well I'll let someone else have fun with that one as I already posted an **** lube reference last week - is only a temporary fix and will disappear in warmer weather. Being oil based, it could also have negative effects on rubber components.
Being in the 'leak' business I have looked at several friends leaky moonroofs over the years (back when we called them sunroofs). Camaros and Volvos had issues with the drain tubes plugging up after a few years worth of dirt etc. was washed down.
I just checked, and our trucks have two pencil sized holes - one at each corner up front. Try and check if they are plugged - it'd be kinda painful to do with water, so if you have an air compressor with a needle blower that might be easier. Mine looked as clean as the day it was installed - and you know what abuse I've put the truck through!
Still dude - that video shown to the Ford service manager, should get you a new setup.
Back on topic - I love mine for the extra lighting more than the venting part which at times sucks my long hair out the roof.