Shooting the geese was ruled out as being ineffective especially due to them being flighty at this time of year.
The baiting will happen between June 14-18 and a contractor will feed the birds poison and remain on site while it takes effect and will then immediately collect the dead birds.
It takes a maximum of half an hour for the bait to work, during this time the contractor remains on site to monitor the birds, tracking any affected birds that move outside the control area.
Waikato District Council community connections manager Megan May said it was a difficult decision.
"The damage the geese do to the neighbouring sports fields means that we may have to spend up to $10,000 on re-sowing them if no action is taken, and the risk to human health for those using the fields is becoming too great."
SAFE campaigns manager Jessica Chambers said it was a short-sighted approach and the council should instead by looking at relocating and rehoming the geese.
"Culling these birds will simply make space for more geese to take their place, creating an annual cycle of more killing.
"Local councils should be creating population management plans to ensure mass cullings don't become the only option they're willing to consider."