Problem with Dolby ac3 playback

The have the stereo soundtrack for my video in .aiff format and it was made with the typical splicing together of different takes etc. The .aiff track sounds fine but when I compress it using A.Pack to a Dolby Stereo (2 channel), 192kbps, -31dBFS, no compression preset- on playback (on my Powerbook speakers!) I get every hiss and crack, ambience noise and edit splice noise that you can't hear in the original .aiff (it's there, but you can't hear it at normal playback.
Can another setting help this or am I stuck with this if I use Dolby stereo?

It's well worth simply opening the file in peak and saving it out wiht a different file name to see if that improves things, however Peak also has a lot of tools which will help you reduce background noises, clicks, etc. It also operates with VST plug ins, of which there are many freely available on the net.
I also use Bias Soundsoap (both as a Peak plug in and as a stand alone app) and can't tell you how many times that has helped me improve audio from dodgy sources! That's well worth considering for cleaning up your audio as well.
Peak's display of the audio is pretty good -it makes it easy to see the noises and background rumbles. You can edit the audio far more finely than you can in FCP.

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