The boost is not the issue, the VGT slamming shut and the DP spikes along with the 6. 7 design seem to be the biggest issues. The DP really has nothing to do with the problem, but the results of of too much fuel and the dead air drive the cylinder temps to the point where the head warps more that it should. Loose the VGT and the probem generally disappears from that aspect, but, it is an inherent problem with the 6. 7 design that requires some extra work to address.
My guess is the head work was not adequate to fix the real problem, if any was done at all. Once the HG goes the head MUST be resurfaced and the tolerances have be much tighter than normal. If a standard resurface is a 30 on whatever scale is used that has to be taken down to something like a 15. There is too much disparity in the expansion rates of the head and the block between the siamesed cylinders. All tolerances and standards need to be adjusted tighter once you go away from stock fueling. Then the VGT ends up being the problem and a WG on the EGR circuit is almost mandatory.
Either leave the engine stock or be prepared to spend $$ addressing the short comings of adding power. Might as well o-ring the head and get it very straight, use a high $$ gasket, and plan on studs or it will be an ongoing problem.