And to continue the subject, depending on the amount of material removal necessary to achieve a flat and true deck (<span style="font-style: italic">true</span> to the centerline of the crankshaft__which should be checked and line-bored, if required...) then you get into issues of deck-height versus piston crown height__they cannot be higher than the deck.
At least you don't have to compensate for cam timing; that only becomes an issue when you <span style="font-style: italic">deck</span> both the block and head(s) on an overhead cam engine, due to shortening the span of the timing chain(s) or belt(s).
Slippery slope, but to truly "blueprint" an engine, which is to say, to build it entirely within specification, those (and much more) are all to be taken into consideration.