Install SysInternals Process Explorer on the Windows Server and find the thread in the process tree. You can kill it if you need to. http://technet.microsoft.com/en-us/sysinternals/bb896653.aspx
From DOS Prompt - tasklist /FI "STATUS eq NOT RESPONDING"
Use the Windows Task Manager or tasklist like Jai suggested. taskkill can also kill a specific PID instead of all processes with that image name.
If you're referring to a local agent from inside of Bamboo, you can see the agent name from the build activity and kill it from within the admin page.
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