Either I am misunderstanding what you are stating or it's
not working correctly.

I formatted my header style and changed the paragraph
indenting to the necessary settings. It does not help
when I copy and paste text.

I was testing and I did insert text boxes from the header
along the left and right margins and that seemed to have
helped this problem...but I am not sure what I will run
into in the future.

So any suggestions will be helpful.

Thanks