Yeah it would make the world feel more alive. It is a big thing to implement but do what Square Enix did add a little bit at a time. I seriously doubt Bungie will do this since this requires time effort and resources and as that costs money, and since destiny isn't a subscription based game to pay for that cost I doubt it will happen.
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that would stink if they didn't do it. drive club just had a weather update and it's amazing looking. destiny could do it like that. also like you said i'd be ok with one planet at a time getting weather.