Hello
Have you checked the load on your incoming from the Internet when you 
are not downloading anything?

Is somebody logging into your machine remotely and starting a 
CPU-intensive task?

Have you got a web server running (Apache for instance) that is being 
heavily used by people outside?

Have you got BOINC running without a CPU usage restriction? I found this 
can hog the CPU if you don't specify a reasonably small CPU usage limit 
for it.

I'm running out of ideas.

Regards, Rob

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Hardy: ksoftirqd, dd, klogd use 100% CPU, Disk
https://bugs.launchpad.net/bugs/368324
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