"We acknowledge the support and certainty the government provided to help us keep many of our people in jobs."
Separate to the wage subsidy, the co-operative has retained $1.9m for the Leave Support Scheme payment to employees that were required to self-isolate or were unable to work, Taggart said.
Self-styled professional campaigner Simon Lusk in September sought to bring a private prosecution against Alliance for its failure to completely repay the subsidy.
Earlier this year, Alliance's Dunedin-based rival, Silver Fern Farms, paid back its $43.3m wage subsidy and declared a $12.4m dividend.
Alliance's move follows a growing list of major corporates to repay the subsidy.
This week, NZX-listed retail giant, The Warehouse said it would repay $68m in wage subsidies received from the Government.