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A dark spot can appear on an X ray or scan for any number of reasons.Esaote Transducer On the other hand, a lesion that appears on a test as a dark stain can indicate a number of serious conditions varying from a tumor to an aneurysm or congenital brain abnormality. Cancer that has spread to the brain from another part of the body is called metastatic brain tumors, according to the National Cancer Institute. Other neurological symptoms such as headaches or vision loss may prompt further tests to look for dark spots. X rays and scans can indicate the presence of a dark spot and help to determine the general skull condition surrounding the tumor, guiding surgeons in their probes. A biopsy is performed by making a small incision in the skull and taking out a piece of the spot to test it under a microscope and in the laboratory. A spinal tap that removes fluid from the top of the spine that leads to the brain also may help identify if cancer is present in the tumor.