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This especially happens when I watch a video with movie player or adobe flash, it uses more than 60% of my Core i5 cpu. (thats the least, it goes up after that)

In windows when I watch the same movie or flash video, it is about 20% cpu usage.

I have tried many those power managerment things in the Ubuntu Wiki and they did not help.

My laptops is Toshiba Sattelite P745 - Core i5 6GB Ram

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If you ask me, an overheating laptop is a hardware failure, not a software one, but does the Flash CPU issue persist if you use Chrome instead of Firefox? – Ken Kinder Jan 21 '13 at 23:25

I recommend trying thermald, this will actively monitor hot thermal zones and will try various methods to try and cool a machine.

Install with:

sudo apt-get install thermald 

For more details, consult the kernel team thermald reference guide.

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