BeanAnimal, assuming you had all your devices on GFIs, does the grounding probe provide a benefit? I understand the issue you raised of it's extreme danger when only some of your components are protected, but assuming all of them are, is it worth bothering with?
That is a double edged sword and looks different depending on what perspective you take.
From a safety perspective (GFCI and probe):
Yes the ground probe adds a layer of safety by giving fault current a path to ground. It will trip as soons as something faults instead of waiting for your BODY to be the fault path that trips the GFCI.
Lets look at a basic example. You have a submerged pump that is connected to a GFCI and it develops a crack in the HOT wire. There is no ground probe, so the current has no path to ground. The water is energized at 120V and does not trip the GFCI (becuase no current flows) until you stick your arm in the tank with another part of your body grounded. The GFCI protects you, but there was no early warning that there was a fault. If there WAS a ground probe in place, you would have walked up to a tank with a tripped GFCI and realized the pump was bad and not had to find out by sticking your arm in the tank and causing the trip.
From the perspective of the livestock:
If you have a ground probe, any voltage present in the water (as the result of a fault, or induced) will create current that flows through the water to the probe. I will leave it up to you to decide if this has an adverse effect on the livestock.
With a PROBE and GFCI this current is limited to about 5mA.
With a PROBE and NO GFCI, the current flowing through the tank is only limited by the branch circuit breaker (15A or 20A) or the fuse on the faulting device, several AMPS at least.
That brings us full circle. Protecting the entire system with a single GFCI is perfectly safe, but not in the best interest of your livestock. Critical life support systems should be driven from dedicated GFCI receptacles. Using a ground probe without full GFCI protection of the system creates a danger that would not otherwise exist.
I choose not to run a ground probe on my system. I do use GFCI protection, with multiple GFCIs per branch circuit. That said, I am sure that there are gound paths through thinks like impeller shafts on my pumps (that is another story for another discussion and likely the reason that some people have so many problems with pump bearings).