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Around 35 cows and 15 sheep were found on the south Armagh side of the farm, while 250 sheep were discovered on the Co Monaghan side, the BBC reports.
Along with Gardaí, a taskforce of 20 PSNI officers were involved in the searches.
The livestock are currently being examined to determine their ownership.
Discovery of ear tags
The PSNI said they did not find any clear evidence of animal theft.
However, they did find breaches in animal welfare and cattle documentation, along with ear tags which did not belong to the herd.
Inspector Leslie Badger told the BBC: "It's not only the terrorism element to Northern Ireland, but also the criminality element – we have some criminals out there who would try to frustrate police actions and disrupt us."
"We rely heavily on our partners in the Republic of Ireland, An Garda Síochána, and it's with their help we can go in here – a property that straddles both sides of the border."
He said such operations "disrupts this type of activity – this is a big footprint into this area today in relation to the viability and the traceability of our animals, which end up on our tables."
Gardaí confirmed to the Irish Farmers Journal that no arrests have been made and the investigation is ongoing.
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