If you say that Sigil is only good for cutting a file in chapters, you do it grave injustice. It has some flaws, sure. But in its right it is a very good tool to create epub's. And yes, without much problems your books look almost the same anywhere.
The examples you mention exactly proves my point. It is not the viewers that are at fault, but the creators of the epub's. They don't follow normal rules and you cannot expect that all viewers to adjust to all steps outside the format. Using pt or px instead of em for example.
Those things are quickly fixed. Much quicker than converting to mobi or RTF. I think it is funy that you remove 'junk' with Word and then reconvert it. There is even more junk in that way...
However, if it works for you.... But put the blame where it should be, the creators of the ePubs.
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