Buon giorno,
good to see that you resolved it! Normally in MRK file yo should have a quality column indicating the type of RTK solution and thus reflected in estimated accuracy in image XMP data.
Anyway when you get DEM -GCPZ error many times the GSD value then it reflects a problem in the project georeferencing (inconsistency between source and adjusted coordinates as in your case)....
To check for this, for the GPP with big discrepancy in Z with DEM do following:
To observer the difference between measured (source) and triangulated (estimated) control point
coordinates only, temporary uncheck the corresponding entry on the Reference pane (thus making it a
check point) and observe the values on the Errors tab. Note that Update button shouldn't be pressed after
conversion of a control point to a check point, otherwise the estimated values would be recalculated with
the given reference point excluded from the computation
If the GCP Z error augments a lot (3 x or more)this reflects a problematic area....and DEM error will reflect this...