WIP: Got relace of footnotes working, need to force ckeditor drop-down to reload.

bibcite_footnotes.libraries.yml

@@ -3,6 +3,13 @@ reference_footnote:
   css:
     theme:
       css/reference_footnote.css: {}
+  dependencies:
+    - core/jquery
+    - core/drupalSettings
+replace_citations:
+  version: VERSION
+  js:
+    js/replace_citations.js: {}
   dependencies:
     - core/jquery
     - core/drupalSettings

bibcite_footnotes.module

@@ -238,9 +238,10 @@ function bibcite_footnotes_form_node_form_alter(&$form, FormStateInterface &$for
               $data = $serializer->normalize($entity, 'csl');
               $build = ['#theme' => 'bibcite_citation', '#data' => $data];
               $citation_text = trim(strip_tags(render($build)));
-              $citation_hash = md5(implode($data));
+              $citation_hash = md5(implode('', $data));
               // Attempt to match up pre-saved entities with the eventual saved ones.
-              $bibcite_references[$field_name][] = ['hash' => $citation_hash, 'citation' => $citation_text];
+              $citation_key = !empty($entity->getOriginalId()) ? $entity->getOriginalId() : $citation_hash;
+              $bibcite_references[] = [$citation_text, $citation_key];
             }
           }
         }
@@ -253,13 +254,8 @@ function bibcite_footnotes_form_node_form_alter(&$form, FormStateInterface &$for
       $form['#attached']['drupalSettings']['bibcite_footnotes']['references'] = $bibcite_references;
     }
     else {
-      $data = $bibcite_references;
-      $form[$triggering_element['#parents'][0]]['widget']['#attached']['drupalSettings']['bibcite_footnotes']['references'] = $data;
-      //$response = $form_state->getResponse();
-      //if (!empty($response)) {
-      //  $response->addCommand(new SettingsCommand ($data, TRUE));
-      //}
-
+      $form[$triggering_element['#parents'][0]]['widget']['#attached']['library'][] = 'bibcite_footnotes/replace_citations';
+      $form[$triggering_element['#parents'][0]]['widget']['#attached']['drupalSettings']['bibcite_footnotes']['references'] = $bibcite_references;
     }
   }
 }

js/replace_citations.js

@@ -0,0 +1,28 @@
+/**
+ * @file
+ * Provides JavaScript additions to entity embed dialog.
+ *
+ * This file provides popup windows for previewing embedded entities from the
+ * embed dialog.
+ */
+
+(function ($, Drupal) {
+
+  "use strict";
+
+  Drupal.behaviors.bibciteFootnotesReplaceCitations = {
+    attach: function attach(context, settings) {
+
+      var formats = drupalSettings.editor.formats;
+      if (formats) {
+        for (var key in formats) {
+          var format = drupalSettings.editor.formats[key];
+          if (format.editor == "ckeditor") {
+            format.editorSettings.referenceFootnotes_list = drupalSettings.bibcite_footnotes.references;
+          }
+        }
+
+      }
+    }
+  }
+})(jQuery, Drupal);