Why does this transport.setting.php file only add the last setting?

?php
/** Array of ClientConfig settings for Flexibility package
 * @package flexibility
 * @subpackage build
 */
 
$mySettings = array();
 
$modelPath = $modx->getOption('clientconfig.core_path',null,$modx->getOption('core_path').'components/clientconfig/').'model/';
$modx->addPackage('clientconfig',$modelPath);
 
$mySettings[1]= $modx->newObject('cgGroup');
$mySettings[1]->fromArray(array (
    'id' => '1',
    'label' => 'Site settings',
    'description' => 'General settings for the site',
), '', true, true);
  
$groupSettings = array();
$groupSettings[1] = $modx->newObject('cgSetting');
$groupSettings[1]->fromArray(array (
    'id' => 1,
    'key' => 'footer_text',
    'title' => 'Footer text',
    'description' => 'Content of the footer text',
    'value' => 'This is the default footer text',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
 
$groupSettings[2] = $modx->newObject('cgSetting');
$groupSettings[2]->fromArray(array (
    'id' => 2,
    'key' => 'flex-4-header-logo',
    'title' => 'Header logo',
    'description' => 'Main logo for your website',
    'value' => '',
    'xtype' => 'source',
    'group' => '1',
), '', true, true);
 
$groupSettings[3] = $modx->newObject('cgSetting');
$groupSettings[3]->fromArray(array (
    'id' => 3,
    'key' => 'flex-4-header-logo-alt',
    'title' => 'Header logo alt text',
    'description' => 'The alt text for the main logo of your website (e.g. company logo)',
    'value' => '',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
 
$groupSettings[4] = $modx->newObject('cgSetting');
$groupSettings[4]->fromArray(array (
    'id' => 4,
    'key' => 'flex-4-header-logo-link-id',
    'title' => 'Homepage page ID',
    'description' => 'Page ID of the header logo link (default = 1)',
    'value' => '1',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
 
$groupSettings[5] = $modx->newObject('cgSetting');
$groupSettings[5]->fromArray(array (
    'id' => 5,
    'key' => 'flex-4-header-logo-link-title',
    'title' => 'Header logo link title',
    'description' => 'Title of the logo link',
    'value' => '',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
 
$mySettings[1]->addMany($groupSettings);
  
return $mySettings;

$mySettings = array();
  
$modelPath = $modx->getOption('clientconfig.core_path',null,$modx->getOption('core_path').'components/clientconfig/').'model/';
$modx->addPackage('clientconfig',$modelPath);
  
$mySettings[1]= $modx->newObject('cgGroup');
$mySettings[1]->fromArray(array (
    'id' => '1',
    'label' => 'Site settings',
    'description' => 'General settings for the site',
), '', true, true);
   
$groupSettings = array();
$groupSettings[1] = $modx->newObject('cgSetting');
$groupSettings[1]->fromArray(array (
    'id' => 1,
    'key' => 'footer_text',
    'title' => 'Footer text',
    'description' => 'Content of the footer text',
    'value' => 'This is the default footer text',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
  
$groupSettings[2] = $modx->newObject('cgSetting');
$groupSettings[2]->fromArray(array (
    'id' => 2,
    'key' => 'flex-4-header-logo',
    'title' => 'Header logo',
    'description' => 'Main logo for your website',
    'value' => '',
    'xtype' => 'source',
    'group' => '1',
), '', true, true);
  
$groupSettings[3] = $modx->newObject('cgSetting');
$groupSettings[3]->fromArray(array (
    'id' => 3,
    'key' => 'flex-4-header-logo-alt',
    'title' => 'Header logo alt text',
    'description' => 'The alt text for the main logo of your website (e.g. company logo)',
    'value' => '',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
  
$groupSettings[4] = $modx->newObject('cgSetting');
$groupSettings[4]->fromArray(array (
    'id' => 4,
    'key' => 'flex-4-header-logo-link-id',
    'title' => 'Homepage page ID',
    'description' => 'Page ID of the header logo link (default = 1)',
    'value' => '1',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
  
$groupSettings[5] = $modx->newObject('cgSetting');
$groupSettings[5]->fromArray(array (
    'id' => 5,
    'key' => 'flex-4-header-logo-link-title',
    'title' => 'Header logo link title',
    'description' => 'Title of the logo link',
    'value' => '',
    'xtype' => 'textfield',
    'group' => '1',
), '', true, true);
  
$mySettings[1]->addMany($groupSettings);
   
return $mySettings;

/* load system settings */
if ($hasSettings) {
    $settings = include $sources['data'].'transport.settings.php';
    if (!is_array($settings)) {
        $modx->log(modX::LOG_LEVEL_ERROR,'Could not package in settings.');
    } else {
        $attributes= array(
            xPDOTransport::UNIQUE_KEY => 'label',
            xPDOTransport::PRESERVE_KEYS => true,
            xPDOTransport::UPDATE_OBJECT => false,
            xPDOTransport::RELATED_OBJECTS => true,
            xPDOTransport::RELATED_OBJECT_ATTRIBUTES => array (
                'Settings' => array(
                    xPDOTransport::PRESERVE_KEYS => true,
                    xPDOTransport::UPDATE_OBJECT => false,
                    xPDOTransport::UNIQUE_KEY => 'key',
                ),
            ),
        );
        foreach ($settings as $setting) {
            $vehicle = $builder->createVehicle($setting,$attributes);
            $builder->putVehicle($vehicle);
        }
        $modx->log(modX::LOG_LEVEL_INFO,'Packaged in '.count($settings).' System Settings.');
        unset($settings,$setting,$attributes);
    }
}