That link looks vaguely familiar.

Thanks for finding that one guys. I was on my phone so couldn't look it up, but thought I remembered Noel saying "no compression."

I find saving [Clips] only is a quick way to create partials without saving of all white space silence. Obviously you don't want lost of repeat clips so song sections is what I do. Or if it is at an early stage, it's a quick way to back up rendered content.
 

So if I understand Noel correctly, audio is not compressed or processed, but it is manipulated by combining several like clips into one when bundled and then separated when unpacked. So the wave files are being manipulated in a way that may not always be good for them. Since the overall file size doesn't seem to be any different from the project folder size, I'd feel safer just leaving them alone.