This is more of a feature request. I have a workaround for those that might want it, but I would really like an officially implemented way to use shortcode within the AdCode.
My workaround is simple... open adrotate-output.php, find line 441 where it says:
and change that to:
That's it! You can now use shortcode in ads as you please.
If this feature is added to the plugin officially, I can suggest having a site-wide setting or a banner-specific option, but really... I'd be happy if this was simply done to all AdCode.