You make an eloquent case. However, I'm thinking many of those "reasons" can be understood intuitively. With all due respect, the ultimate question isn't whether Villeneuve's film satisfies you but whether it works as a film. Iim also curious whether all Herbert fans are as displeased with the film as you are. I think not.
On his blog/website Inverse, Ryan Britt, a Herbert fan, perhaps fanatic, and writer, would agree with you on much being left out but still thinks the film masterful. And he argues that in any form, including the books, the nature of DUNE is to be incomplete: "The truest Dune is the unfinished Dune."
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