Do you have a multimeter to measure resistance and voltage
Warning, actually note the resistance measurement, don't rely on the beeper as they sometimes beep indicating a connection not necessarily a good one.
The connector that goes down to the alternator unplugged would originally have connected to the OEM regulator, ignition off.
Measure between each of the 3 yellow wires, 1-2 2-3 3-1 doesn't matter which ones, should be around half an ohm, the corresponding shop manual should tell you the exact value. Main point is they should be very close to each other. Any more than that value or differences between them, suspect a grubby connector between that plug and the alternator windings.
From the white wire which is probably connected to the new unit now , measure to ground you should see about 5 ohm, significantly more than that suspect a grubby connection between there and the field coil including the green which is the return to ground.
The grubby connectors may be hidden behind the front sprocket cover.
The red or red/White wire should go back to battery +ve. Not to the starter motor side of the starter solenoid.
If they look ok then Voltage measurements with engine idling
Meter on DC voltage
Battery voltage on black wire
Close to battery voltage on white wire going to alternator field coil, should reduce as the revs increase.
Zero voltage on the green wire going to the field coil
Switch meter to AC voltage, measure between each of the yellow wires going down to the alternator, anywhere between 25 and 40v AC depending on load.
A quick check if the field coil is energized, try sticking a small 10ml spanner to the honda logo on the alternator cover, you should feel it pulling the spanner as you pull it away.
Regards
Dave