Got boost issues after P7100 tuning.

[JGheen]

Well, I figured I would start posting it here since nobody really responds on the "Truck 911" forum.
Anyway, I just did my 3K GSK install this weekend, moved my Banks Otto mind cal plate all the way forward(towards the front of the truck), and turned my AFC star wheel about 25-30 times( I lost count cuz it was hard to turn with a screw driver through that hole but that is about how many times I heard clicks and I turned it towards the engine). I am running the Banks Twin Ram intake on my engine since it was part of the package I got from Banks. The Banks stuff has been on there for about a year, I just now got my 3K gov and did some tuning. So after my inital install and test drive I, it had major get up and go in second gear but when I shifted to third and fourth it was low on boost about 8 psi and it didn't pull very hard, if not worse than before. So, I took it on a grade that same test drive and even in fifth gear climbing the opposite side of the Grapevine, down here in So. Cal it had low boost and seemed to be even slowing as I was driving up the hill
So I replaced the intake gaskets and used silicone on the 8 bolts holding the intake down, checked all the other lines. Took it for another test drive and STILL low on boost pipnning the throttle in third and fourth. Second gear still had a mean acceleration.
So then I thought the AFC line from the manifold was cracked, so I replaced it with some new nuts, ferrules and some good vinyl tubing. I also replaced the clamped part of the wastegate actuator line going across the engine, new clamps and fresh hose.
Took it for another test drive and STILL low on boost, not pulling very hard and getting it good in second gear. I though I saw a little more boost, about 2 psi from the gauge when I was stomping the throttle in the test drive, so I was curious about that. But I am just absolutley out of ideas for the whole thing. The fuel shutdown solenoid still fluxes properly, pulling the lever all the way up when I start the engine. I just don't know.
So, please throw your advice and opinions at me, I appreciate it very much. Thanks.