Re: First "Issue"...and it's a Biggie!
Oh man - does not sound pretty!!!
Is this the first time it's rained since you got those sills installed? Maybe something worked itself loose? If the dealer said to bring it in ASAP, then you might want to approach them about cleaning up the carpet, too? I am sure if it's tied to work they did then they will do that without a doubt.
Good luck Stace and keep us posted!!!