I had essentially the same issue with my EGR lines as Dan did. The passenger side bracket wasn't going to work as supplied. The hole to mount it on the frame was in the wrong location. However, all I did was drill another hole to the left of the original one and all worked out fine.
Beyond that, everything fit exactly as specified and expected.
My only other problem was getting the new lines to seal up and not leak where they connected to the hard lines at the brackets. On the first one I torqued it down till I thought I'd strip something. Then I called Glenn. He said to snug them down good, then back them off, then snug them down, then back off, etc. Do this 4 or 5 times. This gets the mating surfaces inside the fittings to re-adjust to the shape of the new lines. Did that on the others and have had no leaks to date.
One last suggestion: get some flare nut wrenches for these. It gives you much better "bite" on the nuts.
-Jay