diff --git a/src/cpl_core/configuration/configuration.py b/src/cpl_core/configuration/configuration.py
index 9b344ace..6ea17122 100644
--- a/src/cpl_core/configuration/configuration.py
+++ b/src/cpl_core/configuration/configuration.py
@@ -215,16 +215,11 @@ class Configuration(ConfigurationABC):
 
                 # flags
                 elif isinstance(arg, FlagArgument):
-                    if arg_str.startswith(arg.token) \
-                            and arg_str_without_token == arg.name or arg_str_without_token in arg.aliases:
+                    if arg_str.startswith(arg.token) and arg_str_without_token == arg.name or arg_str_without_token in arg.aliases:
                         self._additional_arguments.append(arg.name)
                         self._handled_args.append(arg_str)
                         self._parse_arguments(executables, arg_list[i + 1:], arg.console_arguments)
 
-            # add left over values to args
-            if arg_str not in self._additional_arguments and arg_str not in self._handled_args:
-                self._additional_arguments.append(arg_str)
-
     def add_environment_variables(self, prefix: str):
         for env_var in os.environ.keys():
             if not env_var.startswith(prefix):
@@ -310,6 +305,10 @@ class Configuration(ConfigurationABC):
             arg_list = sys.argv[1:]
             executables: list[ExecutableArgument] = []
             self._parse_arguments(executables, arg_list, self._argument_types)
+            for arg_str in arg_list:
+                # add left over values to args
+                if arg_str not in self._additional_arguments and arg_str not in self._handled_args:
+                    self._additional_arguments.append(arg_str)
         except Exception as e:
             Console.error('An error occurred while parsing arguments.')
             sys.exit()