Had the same situation on Scania trucks on the exhaust manifold bolts. The wide temperature swings made the bolts loosen, which was resolved by the factory fitting a spacer and longer bolt. Seen it elsewhere on other engines as well.
I don't know if the D1 manifolds were different on flange thickness, but also bear in mind that the D2 bolts are pre-treated with locking compound, you are supposed to change the bolts if they are removed.
Peter