Alpha23,
I've made 2 videos, in which I tried to show what is wrong with tracks. Hope, it'll help.
In Video 1 I started with a track from the old line-in rip. Then, I played the same track from your rip. I believe, you can hear the difference (each piece of your track becomes silent in the end and the next one starts not as continuation of the previous, but as isolated piece). For comparison, listen to the track from Black Monday (Video 2). This is how it should be when each piece flows into the next.
Video 1 (
http://www.megaupload.com/?d=YWJHK7NI)
Video 2 - black monday.avi (
http://www.mediafire.com/?8pwoqi0iaqmirvu)