It's doable, and I typically shoot both raw and jpg as well so I have a quick image pre-processed and can use the raw for further processing if needed.
I still prefer to write both the raw and jpg to both slots, so using the second slot as a backup. I'm basically getting four files per actuation, 2 raw and 2 jpg, but it protects me from a card failure and works into my archive strategy where I store one of the SD cards until my processing is complete ... just in case I have an accidental deletion or hard drive crash.