Many thanks, @droftarts, and to all the admins for the detailed help - greatly appreciate the support. I see now where I was going off track. I was missing the requirement after updating the Znn offset and restarting the main board to then do another bed calibration (G32). The delta is now able to adjust Z to 0 and touch the paper on the build plate. Below is the config.g as a reference for any one else trying to do this upgrade for a FLSUN SR.
; Configuration file for Duet 3 MB 6HC (firmware version 3.3)
; executed by the firmware on start-up
;
; generated by RepRapFirmware Configuration Tool v3.3.15 on Sat Dec 24 2022 13:47:15 GMT+0800 (Australian Western Standard Time)
; General preferences
M575 P1 S1 B57600 ; enable support for PanelDue
G90 ; send absolute coordinates...
M83 ; ...but relative extruder moves
M550 P"Duet 3" ; set printer name
M665 R151.67 L315 B85 H345 ; Set delta radius, diagonal rod length, printable radius and homed height
M666 X0 Y0 Z0 ; put your endstop adjustments here, or let auto calibration find them
; Drives
M569 P0.0 S1 ; physical drive 0.0 goes forwards - X Motor
M569 P0.1 S1 ; physical drive 0.1 goes forwards - Y Motor
M569 P0.2 S1 ; physical drive 0.2 goes forwards - Z Motor
M569 P0.3 S0 ; physical drive 0.3 goes forwards - Extruder Motor
M584 X0.0 Y0.1 Z0.2 E0.3 ; set drive mapping
M350 X16 Y16 Z16 E16 I1 ; configure microstepping with interpolation
M92 X80.00 Y80.00 Z80.00 E338.84 ; set steps per mm
M566 X1200.00 Y1200.00 Z1200.00 E1200.00 ; set maximum instantaneous speed changes (mm/min)
M203 X18000.00 Y18000.00 Z18000.00 E1200.00 ; set maximum speeds (mm/min)
M201 X1000.00 Y1000.00 Z1000.00 E1000.00 ; set accelerations (mm/s^2)
M906 X1000 Y1000 Z1000 E500 I30 ; set motor currents (mA) and motor idle factor in per cent
M84 S30 ; Set idle timeout
; Axis Limits
M208 Z0 S1 ; set minimum Z
; Endstops
M574 X2 S1 P"io1.in" ; configure switch-type (e.g. microswitch) endstop for high end on X via pin io1.in
M574 Y2 S1 P"io2.in" ; configure switch-type (e.g. microswitch) endstop for high end on Y via pin io2.in
M574 Z2 S1 P"io3.in" ; configure switch-type (e.g. microswitch) endstop for high end on Z via pin io3.in
; Z-Probe
M558 P5 C"!io4.in" H10 F120 T6000 ; set Z probe type to switch and the dive height + speeds
G31 P500 X0 Y0 Z25.755 ; set Z probe trigger value, offset and trigger height
M557 R85 S18.45 ; define mesh grid
; Heaters
M308 S0 A"HOT-BED" P"temp0" Y"thermistor" T100000 B4138 ; configure sensor 0 as thermistor on pin temp0
M950 H0 C"out0" T0 ; create bed heater output on out0 and map it to sensor 0
M307 H0 R0.531 K0.495:0.000 D3.92 E1.35 S1.00 B0 ; disable bang-bang mode for the bed heater and set PWM limit
M140 H0 ; map heated bed to heater 0
M143 H0 S120 ; set temperature limit for heater 0 to 120C
M308 S1 A"HOT-END" P"temp1" Y"thermistor" T100000 B4138 ; configure sensor 1 as thermistor on pin temp1
M950 H1 C"out1" T1 ; create nozzle heater output on out1 and map it to sensor 1
M307 H1 R3.823 K0.846:0.054 D4.00 E1.35 S1.00 B0 V23.8 ; disable bang-bang mode for heater and set PWM limit
M143 H1 S280 ; set temperature limit for heater 1 to 280C
; Fans
; >>Part Cooling Fan
M950 F0 C"out4" Q500 ; create fan 1 on pin out4 and set its frequency
M106 P0 S0 H-1 ; set fan 1 value. Thermostatic control is turned off
; >>Hot End Fan set to start at 45 degrees
M950 F1 C"out7" Q500 ; create fan 0 on pin out4 and set its frequency
M106 P1 S1 H1 T45 ; set fan 0 value. Thermostatic control is turned on
; Filament Runout - https://docs.duet3d.com/en/User_manual/Connecting_hardware/Sensors_filament
;M591 D0 P2 C"io5.in" S1 ; simple sensor (high signal when filament present) connected to IO_5 for drive 0.3, enabled
;M591 D0 ; display filament sensor parameters for extruder drive 0
; Tools
M563 P0 S"SHERPA" D0 H1 F0 ; define tool 0
G10 P0 X0 Y0 Z0 ; set tool 0 axis offsets
G10 P0 R0 S0 ; set initial tool 0 active and standby temperatures to 0C
; Custom settings are not defined
T0 ; select first tool
;M572 D0:1 S0.025 ; Pressure advance for direct drive +++
M501 ; load saved parameters from non-volatile memory
;M911 S10 R11 P"M913 X0 Y0 G91 M83 G1 Z3 E-5 F1000" ; set voltage thresholds and actions to run on power loss