I actually think your calibration turned out just fine. Clearly the calibrated is far superior. I think the calibration simply brought out hot pixels that were there all along. To the extent hot pixels were added, it is much more likely to be coming from your masterdark, especially if your temp wasn't the same on both the dark and the main image. Another issue may be that you used both the masterdark and the bias when calibrating. Since your dark already has the bias built in, you do not need to include it when calibrating your main image.
Finally, even with the hot pixels you see, all of those can easily be dealt with using cosmic calibration and, ultimately, ImageIntegration. And to repeat, I don't see much wrong with the calibrated image in the first place.
Hope that helps.
Jim