Soybean [Glycine max (L.)], one of the most important crops in Argentina, is commonly infected by Colletotrichum truncatum, the causal agent of anthracnose. Tagetes filifolia essential oil (EO) is presented as a natural approach to minimize the dose of chemical fungicides applied to the crop. The fungus Trichoderma harzianum is used as a biocontrol agent because of its ability to produce secondary metabolites that destroy cell walls of phytopathogenic fungi. However, its performance can be affected when it is exposed to chemical fungicides. The objective of this work was to evaluate the antifungal activity of T. filifolia EO both individually and combined with chemical fungicides against C. truncatum, and its effect on T. harzianum. Fungi were isolated from soybean crops. The following pesticides were assessed: carbendazim (F1), difenoconazole (F2) and trifloxystrobin + cyproconazole (F3). The EO was obtained from native plants and its chemical composition was analyzed by gas chromatography–mass spectrometry (GC–MS). The minimum fungicide concentration (MFC) was determined for each compound. Fungicides were combined with the EO to look for combinations that allowed a reduction of pesticide doses. Among fungicides, F1 showed the strongest antifungal activity against C. truncatum (MFC = 0.25 μl ⋅ l–1) and T. harzianum (MFC = 1.5 μl ⋅ l–1). The sensitivity of both fungi to the EO was lower than to fungicides. The EO presented MFCs of 6,000 and 9,000 μl ⋅ l–1 against C. truncatum and T. harzianum. The EO and F1 affected the growth of T. harzianum at concentrations that controlled C. truncatum (31 and 10%). Eight combinations of fungicides and the EO allowed fungicide concentration reductions of up to 80%, although the growth of the biocontrol strain was also affected. The results demonstrated that T. filifolia EO can be used to control anthracnose and reduce doses of chemical fungicides applied to soybean crops. Its effect on T. harzianum should be considered in the design of integrated pest management strategies.