This question has been answered by stortzdesignteam. See the first response.
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdoTools.class )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdoFetch.class )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdoParser.class )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_default )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_parser )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_php )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_modx )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_options )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_cache )
Skipping vehicle object of class modSystemSetting (data object exists and cannot be upgraded); criteria: Array ( [key] => pdotools_fenom_modifiers )