Thanks Bob for pointing me to this bug! On 2011-10-16 I filed a
duplicate of this bug: https://bugs.launchpad.net/bugs/875719. Apologise
for that. Here's a summary of my observation:

hdparm -S worked with 10.10. But with 11.04 my external hard disk
(Seagate) connected via eSATA ExpressCard on a ThinkPad X200s doesn't
spin down anymore on inactivity timeout set to 12 (1 minute). I'm still
able to spin down the disk with the -Y option---but a few seconds later
it spins up again. hdparm with -S set to 1 works, too. But the disks
spins up again after 15 seconds. I guess some process accessing the disk
prevents the disk to spin down which only occurs with -S set up high
enough. How can I detect which process prevents the disk from spinning
down? This hard disk is my backup disk and only in use every 4 hours by
a cron job.

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https://bugs.launchpad.net/bugs/595138

Title:
  Settings in /etc/hdparm.conf are not applied during boot

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