I might be misunderstanding this, but have you configured your package configurations in SSIS to connect to SSIS directly?

To use package configurations successfully, you will need to set a connection to the SQL server via:

- an environment variable

- an xml file

or a registry entry.

I think it's pretty common to use an XML configuration file.

Once you have this configured, you can setup you other package configurations using a configuration table in your SQL server db that you defined in the XML file.