Assuming "presentation" means "layout", I think your only option here is to run Publish (to a multi-sheet PDF) once for each individual DWG file.
That's three separate runs of PUBLISH command, not one: you weren't thinking simple enough.
PUBLISH is not to be used for "sets" as you describe it.
Perhaps you need to get into SSM (Sheet Set Manager), and create separate 'sets', then you can PUBLISH eash set from there. SSM is all about 'sets' of drawings.
"That's three separate runs of PUBLISH command, not one: you weren't thinking simple enough."
Excuse me? It's not clear to me to whom your reply is directed, but your "weren't thinking simple enough" comment is confusing. Please clarify that for us.
"PUBLISH is not to be used for "sets" as you describe it."
No? It seems to work just fine for me, and I see no reason why it wouldn't work just fine for the OP and the circumstances s/he described.
"Perhaps you need to get into SSM (Sheet Set Manager), and create separate 'sets', then you can PUBLISH eash set from there."
I agree that SSM can be helpful in terms of managing sets of "sheets", but it makes no difference in terms of how many times Publish must be run. The OP indicated the "sets" are already "separate" in that they are contained within individual DWG files, so the advantage of using SSM in this case is minimal and may just add unnecessary complexity. (Though I agree that it is a valuable feature and it would be good for the OP to understand it.)
"SSM is all about 'sets' of drawings"
But where it really shines is when those "sets" consist of sheets from multiple DWG files.
pendean,
I'm not on a mobile device.
I'm aware of the "in reply to" marker at the top of the post, which made it clear to me which post you were reading when you clicked the Reply button, but I have found that I really cannot rely on that because sometimes (too many times) people don't pay attention to that "formality" here, and sometimes people mix together in one post comments meant for multiple posters. (Thus my "not clear to me" comment.)
"AFAIK we are both saying the same thing"
Yet, somehow it just doesn't sound the same...