Hi Marques,
What was the article category of the old article and newly copied article? Do you want the new article is single or structured?
Also when you copy article using explicit reference in MM41, you could have removed the component during creation only before saving the new article.
Check your article BOM in CS02 also and remove the components if you see them there.
Let us know about these details to guide you further.
Regards,
Amit