This paper proposes stochastic programming to optimal economic scheduling problems of a sustainable integrated energy system with renewable resources including power, natural gas, and hydrogen carriers. Hydrogen is considered a byproduct of electrical power and natural gas carriers using water electrolysis and steam methane reform process technologies. The main objective is to minimize the operation and emission costs while addressing uncertainties of electric/heating/cooling demands, electricity price, and renewable generation using scenario-based stochastic programming. To achieve a risk-hedging strategy, downside risk constraints are involved to minimize the risky scenarios portfolio. The whole problem is modeled as mixed-integer linear programming in GAMS optimization software. The analysis revealed that the expected operation cost without DRC is $ 577.52 and the expected risk-in-cost value for risky scenarios is $ 470.7. However, a conservative decision for reaching zero risk is costly and increases the expected cost up to $ 2901.1, which is not economically viable. A modest decision-making strategy compromises the cost and risk values where for decreasing the risk-in-cost to $ 288.7 (36.8%), the expected cost increased by to $1010.39 (75.95%). Moreover, the risk-averse decision-maker lowers the power sold to the grid, increases the use of water electrolyzing instead of the SMR process to reduce the environmental charges, and tries to increase flexibility with the help of hydrogen and battery storage.