After some analysis, it seems that the [alascan] module did not produce what was expected and removed the ligand, as the module yet do not accept ligand and parameters files, therefore only scoring the internal energy of the protein and not the difference in presence of the ligand.
Therefore, please do not consider the results I sent you, and wait for an update on the HADDOCK3 code side
We need to update the module so it can also accept topology and parameter files.