Well, I've tried in Advanced Surround, Auto Surround, TV Surround Mode and Expanded mode, and I still only get speaker options for Front, Center and Surround - no Subwoofer. I have the Surround speakers set for Small, FWIW.
I did finally get it to reset. You have to press the Standby button first, and then the Tone button (even though it says Tone button first). It didn't reset the receiver settings though, I can still see the Treble settings I punched in.