Yes. If you look more closely at my marked-up photo of the timing cover, you'll see two little pins -- one at ~ 2 o'clock and the other at ~ 8 o'clock. I think that their job is to hold the water pump firmly in (rotational) position relative to the timing cover, so that any pulses created by the fan belt drive don't, over time, destroy the integrity of the seal at the water pump gasket interface.
While we're on the topic of the gasket, we should also discuss the use (or not) of a sealant in conjunction with the gasket itself. This topic has been discussed often on this site over the years. One respected member with a long career of racing his Z said that he had used Permatex High-Tack 'red' spray-on sealant for more than two decades and had never had problems with leaks. Another respected member said that he put the water pump and thermostat housing gaskets on dry and had never had a leak problem. A third respected member said that he used Permatex 'Aviation Gasket Sealer', but admitted that he considered the use (or non-use) of gasket sealant to be a matter of personal taste. In his words: "It's like antiseize. The factory never used it, but I do."