woof_custom_filter_items_order

Hook woof_custom_filter_items_order gives ability to change the order of filter elements, passes an array of filter keys (you can find a filter section key by clicking its additional options in tab Structure)

Example:

add_filter('woof_custom_filter_items_order', function($order){    
    //your code here
    $order=['by_price','pa_color', 'by_text', 'product_cat', 'pa_size'];    
    return $order;
});