The potential of modified spring barley crops with improved nitrogen (N) use efficiency to reduce nitrogen (N) leaching and to increase soil organic carbon (SOC) storage was assessed at the regional scale. This was done using simulation model applications designed for reporting according to the Helcom (Helsinki Commission) and Kyoto protocols. Using model simulations based on modified crops N dynamics and SOC were assessed for three agro-ecological regions (latitudes ranging 55°20′–60°40′ N) in Sweden over a 20-year period. The modified N use properties of spring barley were implemented in the SOILNDB model (simulating soil C, N, water and heat, and plant N dynamics) by changing the parameters for root N uptake efficiency and plant N demand within a range given by previous model applications to different crops. A doubling of the daily N uptake efficiency and increased N demand (by ca 30%) reduced N leaching by 24%–31%, increased plant N content by 9%–12%, depending on region. The effects of the modified crop on SOC was simulated with the ICBM model, resulting in an increased SOC content (0–25 cm depth) by 57–79 kg C ha⁻¹ y⁻¹. The results suggest that a modified crop might reduce N leaching from spring barley area, in a range similar to the targets of relevant environmental protection directives, a result which held more in the northern than southern regions. The simulated SOC increase on a hectare basis was highest for the central region and least for the most northern region. For the total agricultural area the share of spring barley area was small and more crops would need to be modified to reach the emission reduction targets.