A while back I played a bunch of the beta version, here's what I've found different in the retail version so far.
Star Fox 2 - Retail Version Differences
• "2" in Star Fox 2 updated, 1996 copyright year, new fade-in for the new character icons added to title screen (everyone knows this)
• Test, Training and Config menus removed from title screen
• Stereo/Mono option added to title screen
• Delete option added to Record menu
• Arwing emits sparks when heavily damaged
• Camera options added to pause menu during gameplay
• Fade sound effect for returning to the map screen added
• Full English translation with italicized font
• General Pepper has additional alerts during combat
• Results screen significantly updated with new white background and new statistical information
I can't remember if the control options when selecting a pilot and co-pilot are present in the old beta version.
Let's get playing this gem guys!