Protozoa are tough to get rid of, of course that depends on which species you have.
Try some caprylic acid and monolauric acid, start Ox Bile enzymes a week before (500 mg at iHerb). Do not stop treatment as the protozoa will adapt to the CA/MA. See if you get die off within 4 to 7 days, this should tell you whether the combination is working, this is known as a refractory period.
Other herbs that could work are Allibiotic from NOW, Diar Ease from Himalaya, coptis chinesis and chaparro amargo.