Well looks like I had to solved this issue myself.
It appears that the raw(.fit) files are saved as if the Original CB button was checked in the Infinity software. So the raw stacked files in DSS will appear as the same stacked image in the Infinity program using the original color balance setting. Since I generally don't use the Original CB setting my images in Infinity software don't match those from the stacked raw files.
As an additional observation raw stacked frames captured by the Artemis software produces the same results as the raw images from the Infinity software.