Hello ben,
The NI-4472 has unbalanced differential inputs. With this type of inputs, the best is to measure a voltage from floating sources.
Indeed, if the sources is grounded, the source ground may be different from the NI-4472 ground. This difference is usually between 1 and 100 mV, but it can be higher if power distribution circuits are not properly connected. In these cases, the measruement may be inaccurate because of a ground loop. Nevertheless, there is a 50 Ohm resitor on the signal ground to reduce this current to a negligeable level. We estimate that if the shield is less than 2.5 V from the NI-4472 ground, the perturbations are not significants.
This is your case, so you should directly connect your signal as it is indicated in the NI-4472 User Manual (with the shield on the ground).
Regards,