Well you actually some what answered what I thought, that it only backups specifically WP tables. My email/auto responder application does not run through WordPress.
By looking at the log my self I can see "0009.015 (0) Skipping table (lacks our prefix (wp_)): subscribers"
Here's a link to the full log in case you still wanted to see it logfile
So it seems anything without "wp_" will just be skipped.
Thanks