How do I create a custom product with related products?

The following code creates a custom product, however, when I open the product in the backend, the following message appears:

Select custom attributes "Only attributes with scopes are available" Global, input type "Breakdown" and "Use to create custom product" Yes. One check box ("Color Group") is displayed and must be selected before proceeding.

When I click Continue, all product data is as expected EXCEPT for related products.

//Mage Product
$mpr = Mage::getModel('catalog/product');
$mpr
    ->setTypeId(Mage_Catalog_Model_Product_Type::TYPE_CONFIGURABLE)
    ->setTaxClassId(5)
    ->setVisibility(Mage_Catalog_Model_Product_Visibility::VISIBILITY_BOTH)
    ->setStatus(Mage_Catalog_Model_Product_Status::STATUS_ENABLED)
    ->setWebsiteIds(array(1))
    ->setAttributeSetId(4) // You can determine this another way if you need to.
    ->setSku("C12345")
    ->setName("C12345")
    ->setQty(25)
    ->setShortDescription('short description')
    ->setDescription('description')
    ->setPrice(1)
    ->setStockData(array(
        'use_config_manage_stock' => 1,
        'is_in_stock' => 1,
        'is_salable' => 1,
    ));

    $productData = array(
         '7039604' =>
            array('0' => array('attribute_id' => '85', 'label' => 'ROYAL','value_index' => '28563', 'is_percent' => 0, 'pricing_value' => '')
                 ,'1' => array('attribute_id' => '192', 'label' => '14', 'value_index' => '28728', 'is_percent' => 0, 'pricing_value' => '')
            )
    );
    $attributeData = array(
        '0' => array(
            'id' => NULL
            ,'label' => 'Color'
            ,'position' => NULL
            ,'values' => array(
                '0' => array('value_index' => 28563, 'label' => 'ROYAL', 'is_percent' => 0, 'pricing_value' => '0', 'attribute_id' => '85')
            )
            ,'attribute_id' => 85
            ,'attribute_code' => 'color'
            ,'frontend_label' => 'Color'
            ,'html_id' => 'config_super_product__attribute_0')
        ,'1' => array(
            'id' => NULL
            ,'label' => 'Rivers Size'
            ,'position' => NULL
            ,'values' => array(
                '0' => array('value_index' => 28728, 'label' => '14', 'is_percent' => 0, 'pricing_value' => '0', 'attribute_id' => '192')
            )
            ,'attribute_id' => 192
            ,'attribute_code' => 'rivers_size'
            ,'frontend_label' => 'Rivers Size'
            ,'html_id' => 'config_super_product__attribute_1')
    );
$mpr->setConfigurableProductsData($productData);
$mpr->setConfigurableAttributesData($attributeData);
$mpr->setCanSaveConfigurableAttributes(true);
$mpr->save();