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Yes John, the black marks are from Hot Pixel removal.
I get the exact same thing when I use 'Darks'. They also indicate how good or bad your guiding is by the length of the black line left behind. Any corrections by autoguiding will make the black line longer or travel in a different direction. A single black dot tells you your mount is pretty well spot on, and guiding didn't need to do any corrections (Good P.E.).
To check for yourself, go to your original Raw image and you will see that the black marks correspond to the location of Hot pixels in the original.
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