I just did what you are talking about. The image is not posted here on Astrobin yet, but it is on my website. Take a look.
The website just tells you the basics, not the process. Each setup, one for Lum subs only, and one setup for rgb's only. The lums were processed as any image and saved as a master Tiff, same for the rgb's. Both masters were then opened in Photoshop, more tweaking was done to each image. At this point I left the Lum alone, as it's my reference image, the rgb will be layered onto it. The rgb image had to be rotated and resized tell it matched the Lum image. this took a lot of trial and error tell I got them to match each other. Now I have a large rgb image sitting on a smaller lum image, the image was cropped so it is now the size of the smaller lum image. At this point I now have just one image and needs just one set of stars. Did a starX on both, got rid of the lum stars and used the stars from the rgb image, simple as that.
I should add, the rgb subs were of very poor quality due the not paying attention to the cooler that was not on, running two setups at once is a bit of work.
NGC225_2023 (mynightsky.net)