I'm quite sure the developer is well aware of the cloud and weather problem. The development had a guy working full time on the clouds and weather and they fired him for obvious reasons. Hopefully they have found someone with more expertise to carry on.
The terrain also needs work, but I think the community can fix this if and when the tools are released. I believe they are also reworking the water. BUT for any of this to happen they desperately need to fix enough of the performance, stability, and game play issues of the game engine to make the Sequel successful. If the game engine is finally fixed and the Sequel sells, then the development will have time to breath, and just work on features, aircraft, cockpits, and maps. The unfinished game engine has had the development teetering on disaster for sometime and they obviously aren't out of the woods yet.
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