Index: src/wp-settings.php
===================================================================
--- src/wp-settings.php	(revision 39337)
+++ src/wp-settings.php	(working copy)
@@ -72,40 +72,46 @@ wp_debug_mode();
  * Filters whether to enable loading of the advanced-cache.php drop-in.
  *
  * This filter runs before it can be used by plugins. It is designed for non-web
  * run-times. If false is returned, advanced-cache.php will never be loaded.
  *
  * @since 4.6.0
  *
  * @param bool $enable_advanced_cache Whether to enable loading advanced-cache.php (if present).
  *                                    Default true.
  */
 if ( WP_CACHE && apply_filters( 'enable_loading_advanced_cache_dropin', true ) ) {
 // For an advanced caching plugin to use. Uses a static drop-in because you would only want one.
 	WP_DEBUG ? include( WP_CONTENT_DIR . '/advanced-cache.php' ) : @include( WP_CONTENT_DIR . '/advanced-cache.php' );
 }
 
+// Re-initialize any hooks added manually by advanced-cache.php
+if ( $wp_filter ) {
+	$wp_filter = WP_Hook::build_preinitialized_hooks( $wp_filter );
+}
+
 // Define WP_LANG_DIR if not set.
 wp_set_lang_dir();
 
 // Load early WordPress files.
 require( ABSPATH . WPINC . '/compat.php' );
 require( ABSPATH . WPINC . '/class-wp-list-util.php' );
 require( ABSPATH . WPINC . '/functions.php' );
 require( ABSPATH . WPINC . '/class-wp-matchesmapregex.php' );
 require( ABSPATH . WPINC . '/class-wp.php' );
 require( ABSPATH . WPINC . '/class-wp-error.php' );
+// Patch NOTE; plugins.php was required here previously (<=4.5) none of the above include userfiles though
 require( ABSPATH . WPINC . '/pomo/mo.php' );
 require( ABSPATH . WPINC . '/class-phpass.php' );
 
 // Include the wpdb class and, if present, a db.php database drop-in.
 global $wpdb;
 require_wp_db();
 
 // Set the database table prefix and the format specifiers for database table columns.
 $GLOBALS['table_prefix'] = $table_prefix;
 wp_set_wpdb_vars();
 
 // Start the WordPress object cache, or an external object cache if the drop-in is present.
 wp_start_object_cache();
 
 // Attach the default filters.