When you added the new masters, it may have renumbered the forms of your existing mod (as before your mod would be the 3rd in the order (02), where after adding two more DLC's it will become the 5th.
Not sure off-hand without trying it myself, but you may need to Save the mod in Fo3Edit after checking for errors and such - usually Fo3Edit will renumber forms when the ordering changes.
Miax
Well I know it did not re-number the forms because when I load a previous save from the original version everything is still where it should be. I would imagine if the forms were re-numbered it would be like a new mod with regards to my previous saves.
When I deleted the reference in FO3Edit I did save when I closed but still they re-appear as soon as the mod is loaded in GECK again. Probably not a big deal but of course I would want to resolve any conflicts.
Thanks for the reply.
Joe