An issue I ran across making this mission - https://github.com/darkChozo/armaMissions/tree/master/cooperative/fa3_c46_stemma_v1.Altis
~3.5 minutes into the mission, the fog starts doing weird stuff. It looks like a banding effect, basically layers of high contrast fog of different colors, and in some cases no fog at all.
Imgur album of the issue - http://imgur.com/a/zWqDB
The mission is using the editor weather system with altitude decay and a forecast of no fog. Parameters are here: https://github.com/darkChozo/armaMissions/blob/master/cooperative/fa3_c46_stemma_v1.Altis/mission.sqm#L306