Does anyone know if there is a difference between a AFR for a CPL as opposed to a PPL?
CAAP 5.81-1 at Para 16 "Difference between PPL and CPL/ATPL" suggests -
16.1 When conducting a flight review an assessor must be clear to
determine the different standards required of PPL and CPL or
ATPL holders.
16.2 A private pilot should demonstrate that control of the aircraft
or procedure is maintained at all times but if the successful
outcome is in doubt corrective action is taken promptly to recover
to safe flight.
16.3 A commercial or air transport pilot should demonstrate that
control of the aircraft or procedure is maintained at all times so that
the successful outcome is assured.
why would it have to be noted in my logbook?
The same CAAP recommends the examiner should sight -
applicant’s licence and medical certificate as evidence of identity and authorisation to pilot the aircraft.
If you didn't have a current medical, I guess he could have decided to not sign you off, but he did the right thing and noted the review that you were OK to go once you had a current medical. Seems a reasonable approach to me.