Image Processing: Overlaying segments from an image over one another?

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I have created two B&W images from a RGB image and want to overlay them but have not figured it out. I would need to change the white color on one of the two output images and then remove the black background for the image with the red circles so i could then overlay it on top of the other image.
FYI Images are the same size.
Any suggestions? I am also open to revisions to code. My code thus far is attached.
Thank you

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