I'm confused about what the difference is between all the various reset commands.
The reset command reboots the unit. It does not reset the configuration or anything else.
The setup reset command resets the PacketShaper settings (for example, nic speed and IP address, but not the traffic tree) to the factory default state, and then reboots the unit.
The setup reset all command resets all configurations — basic configuration, the traffic tree with its classes, policies, and partitions; measurement data; and events — to the factory-default settings, and then reboots the unit.