Does pasting a new vector always have to paste in at the top?

Thanks Jacob. The process of copying and pasting is happening during part of the script. For example, I start the script, it automatically copies a piece and pastes it into the template file I have created, and aligns to where I've specified it. But in that paste move, the script is creating a new layer to paste the object. And that new layer is always created at the top of the palette. So, I'm wondering if there's a way to have a new layer generate at the bottom, rather than the top. Or if there's a way to lock this outlines layer in place at the top so that the object that gets pasted into the template is below the outlines layer in the layer order.

So regarding your response, I can't select the layer, or do anything else while the script is running/working. I can only edit the files after the script is done and reorder the layers manually. The problem is, I'm mass producing these files, so to manually edit them all would be...not ideal