Are you using a public SetiQueue or a local one (ie you've set it up on your own machine)?
If it's public...then using SetiDriver's caching abilities will help you in case your own internet connection goes out 🙂 (There is no reason NOT to use both, you can never have enough Work Units stored up 😀)
SetiDriver is a nice app for handling the Seti CLI, and can be used to put an icon for the CLI in the system tray, and not on your task bar (which is nice! 😉)
And yes...the CLI is much better than the GUI!! It's about 25% faster than the GUI when the GUI is optomised (never show graphics/blank screen after 1 minute etc), and up to about 70% faster if the GUI isn't optomised! 🙂
Garry