yup. similar issues with my setup, IoHD, FCP 6.0, Leopard, MacPro (latest), HVR1500 via HD-SDI. the problem is pretty inconsistent. refreshing the device seems to help.
i think of the first capture as a way to wake the system. it never works the first time. i think it’s a Leopard and FCP 6.0 problem. when i did a test with AJA’s VTR xchange, the sync was spot on but the program does not do batch capture.