PURPOSE: Malaria and toxoplasmosis are important public health diseases affecting millions of people and animals each year, and there is a continuing need for new and improved treatments for them. Plants have provided many opportunities for new drug leads in pharmacology. METHODS: We examined 43 crude extracts from Mongolian plants for their activities against the Plasmodium falciparum 3D7 strain and the Toxoplasma gondii RH strain using a SYBR Green-based fluorescence assay and a fluorescence-based assay, respectively. The potential toxicity of these extracts was also assessed on human foreskin fibroblast cells (HFF) using a cell viability assay. RESULTS: From the initial screenings, 11 and 7 crude extracts were effective against T. gondii and P. falciparum, respectively, at 100 µg/ml concentration (≥ 80% inhibition activity). The 50% cytotoxic concentrations of the extracts were estimated on HFF cells, and their 50% inhibitory concentrations (IC50s) were calculated. According to our lead criteria (selective index, SI; value ≥ 10), six plants (Galatella dahurica leaf + flower, Leonurus deminutus leaf + flower, Oxytropis trichophysa aerial part, Schultzia crinita whole plant, Leontopodium campestre root, Spirea salicifolia aerial part) inhibited P. falciparum growth at IC50 values of 5.99-64.15 µg/ml (SI values: 10.11-17.02). Amaranthus retroflexus root was highly active against T. gondii (IC50, 19.89 µg/ml; SI value, 38). CONCLUSION: This first observation of the anti-Plasmodium and anti-Toxoplasma activities of Mongolian plant extracts shows them to be interesting potential candidates for drug discovery.