I think that the key point is that in most modern ebook formats (that are HTML based) end-of-line is simply treated as white space that is equivalent to a single space. This is great for reflowing text which is what they aim to support to fit a wide variety of screen sizes and allow font zooming.
You then need some special logic for recognizing paragraph breaks which then get there own special tag ( typically <p> or an equivalent). The whole concept of end-of-line therefore tends to be stripped out.
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