Dynamics of pesticides decomposition in sweet cherry fruits at different technologies of long-term storage, ultra-low oxygen and modified atmosphere packing, and after post-harvesting application of 1-methylcyclopropen and ozone has been studied. We assumed that type of pesticide and fruit storage conditions may have a profound effect on pesticide residues content. Therefore, levels of residues after applying combinations of active ingredients including acetamiprid, boscalid, cyprodinil, fenhexamid, fenpyrazamine, fludioxonil, fluopyram, pyraclostrobin, pirimicarb, tebuconazole, thiacloprid, and trifloxystrobin were monitored. We found these contents below tolerated maximum residue limits when applied at recommended times and depended on period prior to withdrawal. Low contents of acetamiprid, boscalid, fenpyrazamine, thiacloprid, pirimicarb, and fludioxonil were found when fruit were stored in modified atmosphere packages. Ozone affected degradation of tebuconazole, pyraclostrobin, and cyprodinil. However, differences between storage regimens were not statistically significant (p ≥ 0.05). Kinetic of degradation was studied with fruits stored after treatment with 1-methylcyclopropen and ozone.