If you use any type of CAD/Survey software we have found it useful to import the GCP points for use in the exported PDF to be overlayed in DroneDeploy or Bluebeam. If you have Bluebeam use it combined with the ortho export. It relies on a 3-point alignment and is much more accurate.
This can also help if you are importing your ortho into CAD and it is not aligning properly. Another tip for importing into CAD is to make sure your CRS and Scale Factors are correct.
Check GCPs not used and linework.