SK pointed out that the English-Moses index was sorting Js to the end, and indeed when I looked at the collation that we're using for all sorting (MosesPhonemicCollation, which is designed to handle both English and Moses), J was omitted from the sequence. I added it to the source, installed NetBeans and recompiled the jar, and all seems to be well. I was happy to see that NetBeans was its usual trouble-free self; installed quickly, worked out of the box, and although it complained that a dependency ("hamcrest") was missing from the project, it added it for me, resolving the issue painlessly.
Also added a new Schematron rule to the set, to catch entries with no pron/seg[@type='p'], at SK's request; that caught 19 additional errors, which she's fixing.