The Yamaha only sends program changes. MIDI Designer will respond to them, but all the buttons don't respond correctly. From a user:
The board only sends Midi Program Change messages. I use learn mode to train pedal board button 1 to respond to program change 1, pedal board button 2 to program change 2, etc. When I exit design mode, all pedal board buttons respond to any program change button, rather than each responding to the program change it was trained for.