Alight, dark substraction works great. Well, I assume it does because my dark image is shooting holes in my light frame
I assume my dark somehow is not quite representative even though I took it the same night and they're both 3 minutes.
I added the KSintegration script and it runs, great. It's currently integrating my subs but I'm not clear how to align them first. At least it seems that needs to happen first, right? Ah, it just finished and indeed my M31 has two cores now :-)
I searched the forum for 'aligning' but got no relevant hits. I'm sure it's described elsewhere so please feel free to post a link.
I have to say that pixinsight exudes 'power' so I'll be following it closely to see where it goes. Good luck on the project!