Soil erosion is one of the biggest problems in the agricultural sector that can affect ecosystems and human societies. A field of 50 slope was selected to study the runoff, soil and nutrients’ loss as well as crop productivity in different treatments (conventional tillage (CT) vs. no-tillage (NT), plant vs. no plant cover, contour cultivation (CC) vs. perpendicular to the contour cultivation, (PC) under natural rainfall. The experiment was conducted in central Greece in two cultivation periods. In autumn, the field was cultivated with intercropping Triticosecale and Pisum sativum and in spring with Sunflower. The total rainfall was 141.4 mm in the 1st year and 311 mm in the 2nd. We found that runoff in the treatment of no tillage with contour cultivation was 85% lower in both years compared to the no tillage-no plant control. Therefore, the contour cultivation-no tillage treatment had a positively effect in decreasing phosphorus and potassium concentrations lost from soil: indeed, there was a decrease by 55% and 62% in P and K, respectively, in the NT compared to the CC treatments. We conclude that the NT-CC treatment with plant cover was the most effective in reducing water runoff, soil nutrients’ loss and increasing yield.