If in the .docx file there is a word in italics followed by a Bible reference (that Logos recognises automatically), all the spaces between the two words are taken out so that a single word is created. For example, if in the .docx file there is
(see Isaiah 7:14)
then in the PB file there is
(seeIsaiah 7:14)
and seeIsaiah is considered as one word, although the Bible refence is given correctly as Isaiah 7:14.
I have attached an example, where the first two lines have the error, but the other three do not.