Right, you should
$ sudo apt-get purge tomcat6 tomcat6-common
$ sudo apt-get install tomcat6
Note that you don't have to remove OpenJDK to install Sun's JDK.
I'll mark the bug as Invalid, please reopen if you still have issue.
** Changed in: tomcat6 (Ubuntu)
Status: Incomplete => Invalid
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tomcat6 will not shutdown in Ubuntu 10.04
https://bugs.launchpad.net/bugs/597445
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