Natural carbon dots (NCQDs) are expediently significant in the photo-, nano- and biomedical spheres owing to their facile synthesis, optical and physicochemical attributes. In the present study, three NCQDs are prepared and optimized from Withania somnifera (ASH) by one-step hydrothermal (bottom-up) method: HASHP (without dopant), nitrogen doped HASHNH3 (surface passivation using ammonia) and HASHEDA (surface passivation with ethylenediamine). The HR-TEM images reveal that HASHP, HASNH3, HASHEDA are spherically shaped with 2.5 ± 0.5 nm, 4 ± 1 nm and 5 ± 2 nm particle size, respectively, whereas FTIR confirms the aqueous solubility and nitrogen doping. The XRD patterns ensure that the NCQDs are amorphous and graphitic in nature. Comparatively, HASHNH3 (32.5%) and HASHEDA (27.6%) portray better fluorescence quantum yield than HASHP (5.6%). The increase in quantum yield for the doped NCQDs can be attributed to the surface passivation using ammonia and ethylenediamine. Surface passivation plays a crucial role in enhancing the fluorescence properties of quantum dots. The introduction of nitrogen through ammonia and ethylenediamine provides additional electronic states, possibly reducing non-radiative recombination sites and hence boosting the QY. In addition, an antiviral study unveils the striking potential of surface passivated NCQDs to curb Covid-19 crises with around 85% inhibition of SARS-CoV pseudoviron cells, which is better in comparison to the non-doped NCQDs. Hence, to understand the paramount efficacy of these NCQDs, a hypothesis on their possible mechanism of action against Covid-19 is discussed.