I like to use the Send to Kindle program to put my books in the Kindle Cloud and on my Paperwhite at the same time. That way I can use Whispersync to sync with my phone.
To do this I use a template for Calibre's Save To Disk feature.
Code:
{series} {series_index} - {title} - {authors}
The only problem is that if there is no series it will I end up with "- " at the beginning of the title. Then I use a directory renaming tool to easily strip those away.