The storm 'Daniel' has caused the most severe flood phenomenon that Greece has ever experienced, with thousands of hectares of farmland submerged for days. This led to sediment deposition in the inundated areas, which significantly altered the chemical properties of the soil, as revealed by extensive soil sampling and laboratory analysis. Causal relationships between soil chemical properties and sediment deposition were extracted using the DirectLiNGAM algorithm. Results of causality analysis showed that the sediment deposition affected the CaCO3 concentration in the soil. Also, causal relationships were identified between CaCO3 and available phosphorus (P-Olsen), as well as between sediment deposit depth and available manganese. The quantified relationships between the soil variables were then used to generate data using a Multiple Linear Perceptron (MLP) regressor for various levels of deposit depth (0, 5, 10, 15, 20, 25 and 30 cm). Then linear regression equations were fitted across the different levels of deposit depth to determine the effect of deposit depth on CaCO3, P, and Mn. The results show that there is a linear slope of 0.12, -0.16, and 0.13, for CaCO3, P, and Mn with deposit depth, respectively. Statistical analysis indicates that corn growing in soils with sediment over 10 cm requires a 31.8% increase in P rate to prevent yield decline. Additional notifications regarding cropping strategies in the near future are also discussed.