Nitrogen emissions from agriculture are considered an important environmental problem in Denmark, motivating consideration of different tax schemes as regulatory instruments. In this article, input/output behavior of Danish pig farms is estimated with farm-level panel data using the dual profit function approach, and emission functions for nitrogen loss are derived. With the estimated model, we are able to compare cost effectiveness of a comprehensive Pigouvian tax on nitrogen loss with simpler tax schemes that focus on nitrogen use. We find that both a fertilizer tax and a feed tax generate substantially higher abatement costs than Pigouvian incentives. A tax on nitrogen in all inputs will, on the other hand, only generate a marginal increase in abatement costs. These results are of interest because a tax on all nitrogen inputs is easier to implement than a comprehensive nitrogen loss tax. Our result implies that even a limited administrative cost advantage may make the input tax preferable to implementing Pigouvian incentives through a nitrogen loss tax.