Just an idea ... try tunning pdflush parameters ( ... must be root) :

echo 200 > /proc/sys/vm/dirty_writeback_centisecs
echo 400 > /proc/sys/vm/dirty_expire_centisecs

If it works, make the changes permanent by editing /etc/sysctl.conf

-- 
Heavy Disk I/O harms desktop responsiveness
https://bugs.launchpad.net/bugs/131094
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