I don't have the design guide in front of me, but it may be worth checking when it was published? EQ loading used to be allowable and its possible the combinations in the design guide are outdated. Personally, I wouldn't use the combinations in the design guide as they are not legally adopted. I would use the IBC load combos (or equivalent in your area) and use the design guide as inspiration as to how to apply them with respect to cranes. (E.g. not including lifted load in seismic mass, etc). If the IBC combos produce lower stress, I'd be tempted to also check the design guide combos for sanity.