Maritime NZ is prosecuting commercial jetboat company Go Jets Wānaka and one of its skippers over a collision between two jetboats on the Clutha River in 2022.
The decision to file charges, under the Maritime Transport Act 1994, followed a "thorough" investigation, the spokesman said.
A police spokesman told the Otago Daily Times the collision occurred about 2pm near the Clutha River Bridge in Albert Town.
It left a person with a serious back injury stranded on an island in the river with about six others. A helicopter was called to retrieve them, with the injured person flown to Dunedin Hospital.
The matter is scheduled for a hearing in the Queenstown District Court next month.