Sounds like a decent price. I'd ask specifically whether they'll be replacing the side moulding. The top moulding has to be done so not much point asking about that, and with it being a dealer I'd assume they'll use the correct parts.
Even with a quality installer I'd monitor carefully for water on the passenger floorboard the next time you have a carwash or rain. And remain diligent.. sometimes it depends on whether the vehicle is parked nose up or down on a hill. Reusing the cowl really seems to be a risk factor.. you may be fine, but verify before you trust it long-term.
Thanks for the advice! I’ll definitely take note on the day of install and after.