The nature and conditions of the execution of tests (open or duct flow) in terms of evaluating the flow rate generated by positive pressure ventilators (PPV) may affect the parameters of the drive unit recorded during testing. In this article, popular PPVs (conventional type—W1 and turbo type—W2) of about 4.2 kW were tested under open flow (Method A) and duct flow (Method B) conditions. During the tests, engine load values were recorded: torque, speed, horsepower and, using portable emissions measurement systems (PEMS), exhaust gas emissions: carbon monoxide (CO), carbon dioxide (CO2), hydrocarbons (HC), nitrogen oxides (NOx) and fuel consumption. Depending on the method used to measure ventilator flow rates, drive units can have different drive power requirements (from 3.2% to 4.5%). Changes in drive unit operating conditions induced by the flow measurement method are observed in the results of fuel consumption (from 0.65% to 9.8%) and emissions of harmful exhaust compounds: CO2 up to 2.4%, CO up to 67%, HC up to 93.2% and NOx up to 37%. The drive units of turbo type fans (W2) are more susceptible to the influence of the test methods in terms of flow assessment, where they have higher emissions of harmful exhaust gases when tested by Method A. Flow measurement methods affect the oscillation of propulsion power, which contributes to disturbances in the control of the fuel–air mixture composition. The purpose of this article is to analyse the impact of testing methods for measuring the flow rate of positive pressure ventilators on the performance of the drive unit.