Despite a good effort with the ball by Atkins, who bowled seven overs for 17 runs, Bay of Plenty knocked 155 with all their wickets intact.
"We played poorly and they bowled really well," Northland Second XI coach Steven Knox said. "There was nothing wrong with the pitch, we got off to a bad start and were playing catch up for the rest of the game ... such a comprehensive loss is a disappointing end to the competition," he said.
Defending trophy holders Northland finished their 2011-2012 Basil McBurney season with three wins and one loss. Bay of Plenty, who have won three games, still have to play Hamilton before Northland's final place on the table can be determined.
This Sunday, Northland Second XI will play a friendly one-day match against Taranaki, while Northland First XI play Counties Manukau (away) in their final game of the Brian Dunning Competition.