So yes, It's a MAIW fault.

Duplicated PAPI and bad altitude airport, invisible tower and Runways.

Deactivating MAIW Global Libraries the issue is fixed.

I will have upload the scenery in the coming days for the third time, with the height again as it is in real life and update parking names, since MAIW no longer uses the generic AME code for the Spanish air force, and traffic were parking on the civilian platform.