diff --git a/plugins/woocommerce/changelog/update-custom-meta-data-store-get-meta-keys b/plugins/woocommerce/changelog/update-custom-meta-data-store-get-meta-keys
new file mode 100644
index 00000000000..e71864b4b3d
--- /dev/null
+++ b/plugins/woocommerce/changelog/update-custom-meta-data-store-get-meta-keys
@@ -0,0 +1,5 @@
+Significance: patch
+Type: tweak
+Comment: Added clause to query in CustomMetaDataStore::get_meta_keys to exclude metas where the key is ''.
+
+
diff --git a/plugins/woocommerce/src/Internal/DataStores/CustomMetaDataStore.php b/plugins/woocommerce/src/Internal/DataStores/CustomMetaDataStore.php
index 06cca2d7da7..5b6c52c219a 100644
--- a/plugins/woocommerce/src/Internal/DataStores/CustomMetaDataStore.php
+++ b/plugins/woocommerce/src/Internal/DataStores/CustomMetaDataStore.php
@@ -250,7 +250,9 @@ abstract class CustomMetaDataStore {
 		$query = "SELECT DISTINCT meta_key FROM {$db_info['table']} ";
 
 		if ( ! $include_private ) {
-			$query .= $wpdb->prepare( 'WHERE meta_key NOT LIKE %s ', $wpdb->esc_like( '_' ) . '%' );
+			$query .= $wpdb->prepare( 'WHERE meta_key != \'\' AND meta_key NOT LIKE %s ', $wpdb->esc_like( '_' ) . '%' );
+		} else {
+			$query .= "WHERE meta_key != '' ";
 		}
 
 		$order  = in_array( strtoupper( $order ), array( 'ASC', 'DESC' ), true ) ? $order : 'ASC';