The first pandemic wave of coronavirus disease 2019 (COVID-19) induced a considerable increase in several antivirals and antibiotics in surface water. The common symptoms of COVID-19 are viral and bacterial infections, while comorbidities (e.g., hypertension and diabetes) and mental shock (e.g., insomnia and anxiety) are nonnegligible. Nevertheless, little is known about the long-term impacts of comorbidities and mental shock on organic micropollutants (OMPs) in surface waters. Herein, we monitored 114 OMPs in surface water and wastewater treatment plants (WWTPs) in Wuhan, China, between 2019 and 2021. The pandemic-induced OMP pollution in surface water was confirmed by significant increases in 26 OMP concentrations. Significant increases in four antihypertensives and one diabetic drug suggest that the treatment of comorbidities may induce OMP pollution. Notably, cotinine (a metabolite of nicotine) increased 155 times to 187 ng·L−1, which might be associated with increased smoking. Additionally, the increases in zolpidem and sulpiride might be the result of worsened insomnia and depression. Hence, it is reasonable to note that mental-health protecting drugs/behavior also contributed to OMP pollution. Among the observed OMPs, telmisartan, lopinavir, and ritonavir were associated with significantly higher ecological risks because of their limited WWTP-removal rate and high ecotoxicity. This study provides new insights into the effects of comorbidities and mental shock on OMPs in surface water during a pandemic and highlights the need to monitor the fate of related pharmaceuticals in the aquatic environment and to improve their removal efficiencies in WWTPs.