Just a thought from an experience I had. If you added the sky mod DURING your campaign, it may have messed up the weather. I can't explain it, but one of the patches I added to a running campaign did the same thing to my weather (always clear skies and no wind). When I trashed the old campaign and started a new one, all was fine. If you are still in 1940, it may be an option for you to try too.
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