Does it loose sink as the car is turing over? or all sink lost events post running?
I a wondering is the FAST box itself reseting?
another thought, I would try a different serial cable? Is this the 3 pin on end and DB9 connector on the other? Is so, it maybe Pin 5 on the DB9 connect is loose. Can you ohm out the comms cable go from one pin on one side to the same pin on the other side? This maybe a null application so, pin 2 on one side may go to pin 3 on the other. You need to find out.
I believe the communication standard is RS232, if so take the DB9 connector coming from the FAST box to the PC and measure either pin 2 or pin3 with a volt meter. One should be -3 to -9 Vdc. This is the data send pin. Crank the car and watch the voltage on this pin start jumping around going positive and negative. If it reads 0.0Vdc then the FAST serial port has lost power internally.
Loosing power at the serial port could be caused by environmental factors or faulty electronics inside the box. See what you can find out.