Hello iaerobotics,
If the initial coordinate system for cameras is WGS84, then it is expected that altitude values are defined over the ellipsoid. If the altitude is measure over geoid, you should use WGS84+EGM96 coordinate system instead.
In case the altitude is measured over the take off point, you may need to input the initial height correction for all cameras before placing markers.
Alternatively, you can define 2-3 projections for 3-4 markers in the way that you are doing it now, then uncheck cameras, check on all markers and press Update button on the Reference pane.