It's rejected because this is not considered a bug (there's no attempt
made to prevent this behaviour, and no known method of doing so).

I suspect this may be occurring in the kernel somewhere.

Could you compare the results of running the following for me:

  "halt --debug --force"

vs.

  "halt --debug --force --interface-down"

vs.

  "halt --debug --force --hard-disk-standby"

vs.

  "halt --debug --force --hard-disk-standby --interface-down"


Also please provide more information about your drives - how are they connected 
to your system? (IDE, SATA, SCSI, USB?)

-- 
Hard disk stops and restarts on shut down
https://launchpad.net/bugs/61763

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