Ok, as far as the resetting the TP% this is what you need to do.
Start bike with software running and PCIII connected.
Click "powercommander tools" then select "set throttle position".
Click "reset" and quickly snap the throttle to the stop and roll off (if you do this quickly the bike will not rev very high)
Then click "ok"
video tutorial here:
http://www.powercommander.com/powerc...20Throttle.swf
For the firmware you will need the 9 volt adapter. You CANNOT have the bike running to do this step.
The file you downloaded needs to be "unzipped" so do this before you begin. Make sure you put the file somewhere you can find it
Plug in the 9 volt adapter and have the software connected to the PCIII
Click "powercommander tools" then select "update firmware".
Select the file you downloaded and click "open"
The firmware should update from there.