A porch and set of doors had been burnt in the fire, but there was no structural damage to the church.
"St Mary's is a wonderful treasure. It was built in 1866 and is a very important place for lots and lots of people. Those things are always shocking. We're very grateful today that the end damage is ... minimal."
Two days earlier two people were also spotted running from the scene of two deliberately lit fires which damaged four buildings at Richmond Road School in Grey Lynn.
Firefighters working to douse the school fire saw what looked like two males on the field nearby.
The fires were reported between 4.45am and 5.15am and took hold quickly.
It is understood one of the fires was lit in a toilet block, which spread through a classroom into the roof.
The toilet block was destroyed, and the first classroom significantly damaged. Another three classrooms suffered smoke damage.
Both fires were under investigation and a source said it was likely they were connected.
Can you help?
If you have any information about either of the fires contact the Auckland City police on (09) 302 6400. Alternatively, if you want to remain anonymous call Crimestoppers on 0800 555 111. If you see any suspicious fires, call 111 immediately.
- additional reporting APNZ