Decreasing efficacy of fungicides and the withdrawal of further hazardous active ingredients in pesticides from use have prompted the search for alternative methods of crop protection. Essential oils (EOs) are secondary metabolites of plants and have been proven to show antibacterial, antifungal, and pest-repellent properties. This study was undertaken to determine the activity of grapefruit, rosemary, pine, sage, and thyme EOs against the fungus Cercospora beticola, which is the most dangerous pathogen of sugar beet and the causal agent of Cercospora leaf spot. According to the determined Minimum Inhibitory Concentration (MIC), thyme EO was found the most effective against C. beticola. For most of the fungal isolates tested, the MIC of this EO was 0.313 mL/L. Thyme EO also inhibited the growth of multi-resistant isolates. Based on the results obtained, thyme EO was subjected to further testing in field conditions, where its efficiency in controlling C. beticola was also proven. The results indicate that the use of thyme EO may be a promising method for the protection of sugar beets, although it requires further optimization in the context of its inclusion in sustainable protection programs assuming a reduced number of synthetic fungicide treatments.