Publish several large storyline files as one course on CD

For starters, #1 won't work. Your storyline file is a bunch of files all saved together under one name. It has to be read by Storyline, and cannot be pasted.

For these to be accessed by people without Storyline, they have to be published.  I think if I were doing it, I would publish each one individually. That may be the easiest way to put them on a CD without, as you say, a lot of extra work to get them all to fit together.  I would publish for the web, not a CD, and create an HTML file that would have links to each of them. The learners would see an internet page in their browser, and could select any portion of the course they want.