Conventional farming poses threats to sustainable agriculture in growing food demands and increasing flooding risks. This research introduces a Bayesian Belief Network (BBN) to address these concerns. The model explores tillage adaptation for flood management in soils with varying organic carbon (OC) contents for winter wheat production. Three real soils, emphasizing texture and soil water properties, were sourced from the NETMAP soilscape of the Pang catchment area in Berkshire, United Kingdom. Modified with OC content at four levels (1, 3, 5, 7%), they were modeled alongside relevant variables in a BBN. The Decision Support System for Agrotechnology Transfer (DSSAT) simulated datasets across 48 cropping seasons to parameterize the BBN. The study compared tillage effects on wheat yield, surface runoff, and GHG-CO2 emissions, categorizing model parameters (from lower to higher bands) based on statistical data distribution. Results revealed that NT outperformed CT in the highest parametric category, comparing probabilistic estimates with reduced GHG-CO2 emissions from "7.34 to 7.31%" and cumulative runoff from "8.52 to 8.50%," while yield increased from "7.46 to 7.56%." Conversely, CT exhibited increased emissions from "7.34 to 7.36%" and cumulative runoff from "8.52 to 8.55%," along with reduced yield from "7.46 to 7.35%." The BBN model effectively captured uncertainties, offering posterior probability distributions reflecting conditional relationships across variables and offered decision choice for NT favoring soil carbon stocks in winter wheat (highest among soils "NT.OC-7%PDPG8," e.g., 286,634 kg/ha) over CT (lowest in "CT.OC-3.9%PDPG8," e.g., 5,894 kg/ha). On average, NT released minimum GHG- CO2 emissions to "3,985 kgCO2eqv/ha," while CT emitted "7,415 kgCO2eqv/ha." Conversely, NT emitted "8,747 kgCO2eqv/ha" for maximum emissions, while CT emitted "15,356 kgCO2eqv/ha." NT resulted in lower surface runoff against CT in all soils and limits runoff generations naturally for flood alleviation with the potential for customized improvement. The study recommends the model for extensive assessments of various spatiotemporal conditions. The research findings align with sustainable development goals, e.g., SDG12 and SDG13 for responsible production and climate actions, respectively, as defined by the Agriculture and Food Organization of the United Nations.