I'm not familiar with your camera but I suspect that you may be taking the bias frames incorrectly. What software are you using to control the camera with? Both MaxIm and CCDSoft you tell what type of frame you are taking such as bias, dark, and flat. The bias frames are taken using the very shortest exposure possible for that camera. It may also be that the that information is written into the FITS header and PI isn't reading it.
These are just my guesses. I have no issues creating master frames taken with either of my SBIG cameras controlled by either program above.