What you need to do, is to clock the compressor cover slightly up about 1/2 to 3/4 of an inch. This is done by loosening all the compressor cover backing plate bolts. Should be 13mm or 1/2". Loosen them just enough so that you can rotate the compressor cover. Don't hammer on the cover too hard as there is a backing plate O-ring that seals the compressor cover to the backing plate. I find it best to use a rubber mallet on the compressor cover discharge and lightly tap it up. If it's fresh, it should still have a slight film of assembly oil on the o-ring and the cover should rotate. I say don't take the bolts out cause some of them are a real pain to put back in with the oil drain line in place, just loosen them enough so that you can rotate the cover.
Once you have the cover positioned where you want it, tighten each bolt back hand tight in a criss cross fashion, paying close attention that the compressor cover is fully and evenly seated against the backing plate. Another reason why we don't want to completely take the bolts out of the cover. Once you have them snugged up you should be good to go.
And here's another tip, with some WD-40, I would spray a light coating onto the intercooler inlet neck, install the intercooler hose as far back (away from the compressor cover discharge) as possible. Rotate (clock) the compressor cover up, tighten the compressor cover bolts hand tight, then slide the intercooler hose off the intercooler neck, onto the compressor cover discharge. Don't worry about the oil causing a leak, the intercooler is not going to move with all the brackets in place, and neither will the turbo. When you are done, you will have somewhere between 1 1/2" and 1 3/4" of gap between the intercooler and compressor cover discharge. Now is a good time to install a new set of T-bolt clamps as well. A piece of hose that is 4" long should fit the bill nicely. When they assemble Buick turbos, there is no jig to put the discharge in the proper orientation, so they just give it their best guess on the position.
Feel free to ask any questions as we're all here to help.
Patrick