Plant resistant and immune species as hedges, and try not to plant many susceptible species together. When removing a tree, remove the whole tree so that there is no stump left to get infected.
If Honey Fungus is found growing in compost heaps, it's best to not use the compost for planting.
Physical barriers can be useful to stop the spread to unaffected areas, something like a pond liner (butyl rubber) or heavy plastic sheeting can be placed underground to limit honey fungus spread, this should also extend 2-3cm out above the soil. Regular mechanical action to break up root-like structures known as rhizomorphs is also helpful to limit the spread.