I guess I must have missed your sig or a comment about the turbo.
Aahhhh, now it all makes sense. the stock ECM needs to see boost pressure before it will fuel. with your boxes on there trying to fool the ECM anyway, the electronic disconnect on the stock harness was nearly a don't care -- since the boxes fuel according to boost, and they were reading it just fine.
But I'm sure that even the stack works better now that the ECM can see boost levels up to 20psi. thats how it dials in duration that gets augmented by TST.
Well, you've got a good dealer -- to troubleshoot down to the pressure relief valve, fix that under warrenty and all that, all the while staring down a turbo capable of amazing boost levels. they HAD to have known you had a box on there, and just looked the other way. those guys are keepers.
At this point what I would do in your case -- if you have questions about the pressure relief valve repair itself --- is to ask what diagnosis they performed that pointed to that valve. In what way was it bad and how did they confirm that. to be fair here, given this new information, we have to ask for validation before we absolutely conclude that you popped the pressure relief valve.