lammert - 5:49 pm on Mar 14, 2010 (gmt 0)
A script going nuts is indeed a possibility. 1041 seconds is a really large amount for a script. This looks like an internal loop in the script which is not terminating. The visitor which triggered that action probably left the site long before the execution was finished.
Did the hosting company tell you which script is causing these problems? If it is a plugin, you might safe a lot of CPU resources by temporarily switching off that plugin. If it is in the main stream WP, it is probably known behavior and fixes or workarounds might be available.