you chase the threads with the right size tap.you use taps and dies to make threads.
get it all dipped {make sure they take out all the gallery plugs,as some dont),machined ,balanced then tap all the main engine threads.then right before and i mean when its on the stand and your about to put it together use gun barrel brushes in the gallery's to clean them and then blow out with air. then i use very very very hot water and rinse the engine well.then blow out again and dry with air.then oil the bores caps etc etc.then it is time to start putting it together.this is a ruff idea not exactly what i do.
mick