I made every DELETION of code (IE code that is not REPLACED by the upgrade edits) clear in the upgrade .txt file.
I also stated that you should redo all file edits (I can't remember if I made any exceptions), but I think you can figure this one out for yourself - if the code is not changed, the file doesn't need to be rehacked
As for why I had to do it this way, it was far easier than to dupe the instructions again.