$setting = $modx->getObject('modSystemSetting', 'my_setting');
$setting->set('value', 'Some Value');
$setting->save();
This question has been answered by smashingred. See the first response.
$setting = $modx->getObject('modSystemSetting', array('key' => 'my_setting'));$rightNow = date('n/j/Y g:i:s A');
return 'current time: '.$rightNow;$rightNow = date('n/j/Y g:i:s A');
$setting = $modx->getObject('modSystemSetting', array('key'=>'api_import_date'));
$setting->set('value', $rightNow);
$setting->save();
return 'Cache test run<br>'.$rightNow;Remove cache clearing logic from system setting model