The three main versions I use in Logos are the NIV, the ESV and the NET Bible. Each of them have some peculiarities (bugs) in the way that they are showing footnotes in the beta (I have 4.5b10). In the NIV, whenever the NIV has two superscript numbers one after another (one a footnote, the other a cross-reference), the footnote is missing at the bottom of the page. In the ESV, all the footnotes are marked with a capital "I" so the list of footnotes at the bottom all have the same superscript number in front of them, so it is impossible to determine which footnote goes where. IN the NET Bible, all the superscript numbers are repeated in the footnotes (eg. 29 29).