Yes, the FSM is refering either to pins in the ECU or numbered connections to relays and other components. Probably for "clarity" - to me it adds a little more confusion... They aren't using the numbering scheme of the relays so I don't expect necessarily to see the AFM numbering scheme being used either.
1974 "early" 260Z - L28ET - MS3X full sequential fuel and spark, COP=Ford 4.6 coilpacks w/ Nissan Ignitor, diyautotune chopper wheel - FMIC - T04E .63 A/R - 400cc Injectors (too big!), 14point7 Spartan2 Wideband - C/R 5-speed - Coilovers - Big Brake Kit up front, Porterfield friction all around. Mesa, AZ