The basic reason is that the HTML "<p>phrase </p>\n<p>" becomes a P object containing a single text object, then a text object and then another <p> object while "<p>phrase \n<p>" becomes two P objects, each containing a single text object. Not much I can do about that I'm afraid, as that is the correct object representation of the HTML
EDIT: Incidentally you should use the --base-font-size option instead of --font-delta
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