Hi Chuck, 
Did you see the email from earlier today [1] regarding a Unicode bug? The latest development snapshot might address your issue (maybe! I'm not sure!).

HTH.
Best,
Bridger

[1] https://mailman.uni-konstanz.de/pipermail/basex-talk/2018-April/013071.html

On Wed, Apr 18, 2018, 9:18 PM Chuck Bearden <cfbearden@gmail.com> wrote:
Hi all,

I have loaded a large XML document (a dictionary of New Testament
Greek) into its own database in BaseX 9.0. I'm using OpenJDK 1.8.0_162
under Ubuntu 16.04.4. I used the default Java parser, and I enabled
the token & full text indices, but otherwise the database settings
were the defaults.

When I execute a particular query, I'm getting a sequence of the
character reference for the carriage return ('&#xD;') instead of some
characters like the single & double daggers.

Here is some typical output:

  <!--Page: 4 ; Entry: ἄγε|G33 -->
  <entry n="ἄγε|G33">
    <note type="occurrencesNT">2</note>
    <form>
      <orth>ἄγε</orth>,</form>
    <seg type="derivation">prop. imperat. of<ref>
        <foreign xml:lang="grc">ἄγω</foreign>
      </ref>,</seg>
    <sense>
      <gloss>come!</gloss>used as<gramGrp>
        <pos>adv.</pos>
      </gramGrp>and addressed, like<ref>
        <foreign xml:lang="grc">φέρε</foreign>
      </ref>, to one or more persons:<ref osisRef="Jas.4.13">Ja
4:13</ref>,<ref
osisRef="Jas.5.1">5:1</ref>&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;&#xD;
    </sense>
  </entry>

The sequence of '&#xD;' char refs replace a dagger '†' (U+2020). I
wonder if I'm doing something wrong, or if I've happened on a bug.

Here is my XQuery:

  declare namespace tei = "http://www.crosswire.org/2013/TEIOSIS/namespace";
  declare namespace xsi = "http://www.w3.org/2001/XMLSchema-instance";

  let $coll := collection('abbott-smith.tei'),
      $elems := $coll//tei:seg[parent::tei:entry]

  return <div
      xmlns="http://www.crosswire.org/2013/TEIOSIS/namespace"
      xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">{
      for $elem in $elems
      let $entry := $elem/parent::tei:entry,
          $entry_lemma := $entry/@n/data(),
          $page_num := $elem/preceding::tei:pb[1]/@n/data(),
          $comment_text := concat('Page: ', $page_num, ' ; Entry: ',
$entry_lemma, ' ')
      return (
        comment {$comment_text},
        $entry
      )
  }</div>


The source XML document is here:
https://github.com/translatable-exegetical-tools/Abbott-Smith/blob/master/abbott-smith.tei.xml

Thanks in advance for your guidance.

All the best,
Charles Bearden