If i hadnt read the thread first my reaction would have been its reacting to the change in exposure of the milky way as it moves. But this should be reflected i the metadata (which is not the problem , its accurate). But if you have locked off iso, shutter speed, f stop , WB, focus, etc with the camera it will NOT show such changes unless there IS some auto feature somewhere still enabled. That leaves the processing of the RAW files. Exposure compensation? As the milky way brightens then lighter ground objects dim slightly, which is why it feels like its an exposure issue and once you've set your exposure triangle all the camera has left is its trickery, like exposure compensation, noise reduction, low light noise reduction. just go through camera menu settings, look for things that sound like they make their own changes... words like Reduction and Compensation and Auto and Sensitivity.
BTW do you shoot only RAW or RAW+JPG? if you shoot RAW + JPG then timelapse the JPGs and if they are flickery the problem is with the camera but if it goes away its definately your RAW processing on computer. Certainly a way to test.
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