Three-dimensional numerical analysis is presented in this study to assess the transient and stability behaviour of supercritical CO2 (sCO2) based NCLs configured with three different types of heat sources, i.e., heater, a hot heat exchanger (HHX) and isothermal wall (ISO) at the source, and a cold heat exchanger (CHX) at the sink in all three NCLs. Unsteady three-dimensional conservation equations (mass, momentum and energy equations) are solved to assess the transient and stability behaviour of sCO2 mass flow rate, temperature and velocity as a function of time. Further, the effect of pressure on sCO2 mass flow rate is also assessed to compare the loops performance. Performance of the loop has been studied for various heat inputs at the source by keeping constant mass flow rate and temperature at the sink. It is observed that for any boundary condition at the source, the loop experiences some initial disturbances or instabilities before reaching the steady-state. However, the time needed to attain a steady-state varies with the nature of heat input employed at the source. Results show a higher magnitude of instabilities in the Heater-CHX loop than HHX-CHX and ISO-CHX loops, and these instabilities mitigate at a faster rate in the ISO- CHX loop at all levels of heat input and operating pressure of the loop. It is also observed that as loop fluid operating pressure increases, the instability of the system decreases and the loop fluid mass flow rate increases. Further, the Nusselt number in the Heater-CHX loop is more than other loops because of its high turbulent kinetic energy. The findings of this study are validated with the published experimental and numerical data and found a good agreement.