The planes have served the islands for more than 10 years, making 32,000 take-offs and landings.
A water cannon salute greeted Captain John Morris, First Officer Harry Bell and passengers as the Dornier touched down in the Bailiwick for the last time.
Only a handful of Dornier 228NGs were built, making the move to a wider supported aircraft type even more important due to increasing pressures on global supply chains.
Aurigny welcomes their replacement, the Twin Otter, which has been running alongside the Dorniers to support a smooth transition.
Chief Commercial Officer Philip Saunders is looking at the future.
“After so many years of service, it is right that we honour the final flight of the Dornier 228NG.
"It is also important for us to take this moment and recognise the teams who have supported the aircraft, both in the air and on the ground - enabling more than 30,000 flights that have connected the Bailiwick since 2015.
“With the Twin Otter, we can now look to the future with confidence in our proud and ongoing role in connecting our communities.”
The Twin Otter has already delivered 400 flights since entering service and will now take over as sole aircraft type of the Alderney routes.


Corridor gallery opens in Guernsey hospital
Guernsey Prison Governor to 'step aside' during conduct investigation
Guernsey reservoir walk reopens following 'extensive' tree surgery
Two more Asian Hornets found in the Bailiwick of Guernsey
Guernsey Autism charity gets States commissioning deal
Digital travel permissions extended to Channel Islands this month
Major Guernsey Occupation film to be shot on-island this summer
62 new homes added to Guernsey's housing stock