2 main issues
From what I have read of the judgement, it went against SVA/RDR on 2 main issues:
First, the info from the 2 companion books (Quidditch and Beastiary). The information in these are already in reference book format, so including this information in Lexicon would make buying the companion books unnessesary so harming sales. In other words, for these two books the work is not transformative. So these entries could just be removed.
Second, the Judge decided that some of the Lexicon entries used too much of JKR's original language. Not just direct quotation without attribution (which RDR had said during the trial had been corrected) but also turns of phrase within entries that were not direct quotation. To quote, the Judge said ". . . the Lexicon uses Rowling's poetic language nearly verbatim without quotation marks". He is right on that, I think, from the examples he uses.
If these two issues were resolved, I can see nothing else in the judgement that would keep the Lexicon from being published. Hopefully, they will review the manuscript and print it soon. I'll certainly buy it.