Have you made sure that the remove silence mode is turned on? In tools, Click on 'Remove Silence' and make sure 'Remove Silence Mode' is on (green).
Just a thought. Also, what do you have the 'Add Silence When Playing' set at?
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Show Computer (Custom Built)
OS Windows XP SP3
Processor 2.7GHz single core
Motherboard with 6 channel Audio
2GB RAM
250GB AV hard drive
256MB Video Card with S-video and dual display
DVD-ROM Drive
430watt power supply
Rack mountable case
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