It depends on your transmit frequency. If your transmit frequency (in the WSJT program) is close to what they are transmitting on, it will stop if they transmit to someone back. This happens all of the time if you won't check "Hold TX Freq" because that will cause you to transmit on their frequency. Other times you just happen to be transmitting on similar frequencies. I don't know how close the similarity has to be to stop your transmitting, though.
73 John AF5CC