Ok, I'm going step by step with new exports I just made. I ran your patch, and made new backup of that, and new exports.

When I ran the products on new sites (complete product list) I notices few blue items what is not supposed to because everything should be green (new items).

When looking for those numbers in the database I see they are duplicated. So apparently the patch somehow didn't work to perfection because there are few items with same model number. To be exact: 2.