A medical system for ablating a tissue site by electroporation with real-time pulse monitoring during an electroporation treatment procedure is provided. The treatment control module monitors applied pulses and detect an abnormal condition that indicates either an ineffective electroporation of the tissue or an imminent excessive current such as a spark event that may exceed the capacity of the pulse generator. Rather than terminating the procedure entirety, the treatment control module temporarily pauses the procedure to allow the user to adjust the pulse parameters so as to complete the procedure without starting the procedure over again.
