Hi,
I suggest you to segment all your images (SPM Segmentation) into grey matter, withe matter and CSF.
Use the normalized wc1 wc2... to calculate a mean image using SPM ImCalc. First for all wc1 than for all the wc2.
If you want to include CSf to get all intracranial tissues, do the same for the wc3.
Finally sum both average images to get skull less image. The image values will be between 0 and 1 so, use a threshold between these values to binary.
PS: I usually use a threshold around 0.25....
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