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Okay.  I hope this will help you help me.

Here is an image I may want to tweek the sky on.  I've duplicated the background into a new layer.

[ATTACH]58622[/ATTACH]

In  this next screenshot, I've used select>color range to select much of  the sky.  Note the areas of the sky not in the selection.

[ATTACH]58623[/ATTACH]

In  the next screenshot, I have used the rectangular marquee selection  tool, and "add to selection," drawing boxes around the areas that werent  in the original selection.  Looks like I have the just the sky  selected, right?

[ATTACH]58624[/ATTACH]

In  this next screenshot, I have added a layer mask, and then changed the  blending from "normal" to "multiply" to darken the sky.  If I had  instead adjusted the curves, the result would be the same.  The problem  is most clearly visible on the far right side of the sky.  You can see  the rectangular shape that became even darker than the rest of the sky.   That rectangular shape is exactly the shape of the area I added to the  selection in the previous step.

[ATTACH]58625[/ATTACH]

What is going on???