is the remote using?
Wireless, Bluetooth, Infra Red, USB?
Any one of those may not be active after the machine sleeps.
P
I have Eye TV installed on my Mac Mini(1.25 Ghz): 512 MB: 80G hard Drive. It works fine but gets unresponsive after using it for prolonged periods (say 10 hrs). The remote for eye TV stops responding after the Mac goes to sleep and wakes up.

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