Same problem on Asus M3N78-EM & SATA HDD Western Digital 320gb & Kubuntu 9.04.
All works good, but after sleep (S3 suspend) system can't access to /dev/sda 
drive.
If system can wake up without hdd access, all works good to the time that the 
system need read something from hdd.
I try the AHCI and SATA modes on the bios, enable/disable AHCI 2.0, upgrade 
bios to latest version, but nothing helps.
In forum http://www.nvnews.net/vbulletin/showthread.php?t=123583 I have found 
some solution: add "pci=nomsi" to the kernel parameters for solve this problem. 
I have try this tomorrow and post result here.

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no wakeup from S3
https://bugs.launchpad.net/bugs/334117
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