In short, the project was a success!
Results from the real data gathering mission with MK5 validated the project abilities as for terrain reconstruction.
The image below shows the produced data (in gray) compared with ground truth obtained with LIDAR (colored). There is some noise in the data, as expected, but the final result is accurate enough to be able to see the tree growth in 11 months between the data sets.
With the knowledge gathered so far it is time to move on to bigger and more challenging things.