Both images are pleasing. Well done on both.
Differences between images: Generally the difference will be down to incorrect calibration. Example of where this is not possible: Suppose camera A had an H-alpha filter only, and camera B had an OIII filter only, there would be no way that you could make the two images look the same. But suppose instead camera A had a high QE for red, and an efficient red filter, but camera B had a low QE for red and an inefficient filter, so long as the bandpasses were reasonably overlapping (ie not like OIII and Ha, which are mutually exclusive) it should be possible to calibrate the two images to look pretty similar in the red. Same argument for green and blue.
Under other conditions, incorrect removal of different moonlight or sky gradients can also produce apparent differences between images.
(I recall that you did add some H-alpha data for one of the two versions of the original image, so that could explain some of the difference at least for that particular version).
It makes complete sense to
combine the data from the two images. Then you would have an even better image.
Best,
Mike