Hi Dennis ,
Last thing before finishing a steaming session blow down the cylinders and valve chests with steam vented out of drain cocks . On most models there aren't enough drain cocks – you need them at all the lowest points including on valve chests .
After that treat cylinders with a water miscible oit like Ensis mentioned above . To do this properly you need doping plugs on the cylinders and to move engine around a bit to spread oil .
Note that after shut down a hydrostatic lubrication system can do odd things like have all the sludge in the tank sucked back into the engine works by cooling induced vacuum in cylinders . Best to shut system off before end of steaming .
Best to leave drain cocks open during storage in any case ..
The nature of the rust can tell you sometimes what caused the problem – flake rust , powder rust , corrosion pitting or just rust staining ?? Also just rust on bottoms of cylinder bores and valve chests or everywhere ??
Sometimes rust in CI cylinders is much less severe than it first looks – if you are lucky a clean up and a run might just clear it away .
Regards ,
Michael Williams .
PS: For next engine – after final assembly and painting flood all cylinder parts with oil for a week before first steaming .