Hello Dave,
In the recent versions of Metashape it is possible to select different coordinate systems for chunk, cameras and markers in the Reference pane settings dialog. But it is only possible when all the systems are defined on the same Datum or all of them have ToWGS84 parameters defined.
So it is not obligatory to uncheck cameras, for example, if their coordinates are in WGS84 and markers are in some UTM projection: you can just set UTM system for chunk and markers and select WGS84 for cameras. Effectively it would work similar to the case, when you convert the camera coordinates to the desired system in advance.
You can leave the cameras checked on in the pane, if the coordinate information for them corresponds to the selected coordinate system and the accuracy of the coordinate measurement is within the defined "Accuracy" value for cameras.
Note that you can set up individual accuracy for X, Y and Z coordinates, for example, if you are not confident in the altitude information from the drone, you can set 5/30, for example, which would mean that XY accuracy is 5 meters and altitude - 30 meters.