Hello,
Here is a link to example program which measures the frequencies of two signals simultaneously, by using Analog Output 1 as the gating signal.
http://venus.ni.com/stage/we/niepd_web_display.DISPLAY_EPD4?p_guid=B45EACE3E8E556A4E034080020E74861&p_node=DZ52329&p_submitted=N&p_rank=&p_answer=&p_source=Internal
Simply connect Analog Output 1 to the gate of both counters and then connect your signals to the sources of each counter. Make sure you specify counter 0 and counter 1 on the front panel before you run the VI, otherwise you will receive an error.
Regards,
Bill B
Applications Engineer
National Instruments