First of all 64-bit builds of Java do no have the auto-update feature. So you should only have to worry about Java using 32-bit (x86). You can turn off the AU a number of ways. Create a file called "Java Policy - Disable Auto Updates.reg" and paste the following text into it.
Windows Registry Editor Version 5.00
Then if you have a batch file you use to install Java on the workstation then just add the following lines to the batch file:
XCOPY "\\10.10.5.100\Java_Updates\*.reg" "C:\Java_Updates\" /E /Y /V /I /Q /R
RegEdit /s "Java Policy - Disable Auto Updates.reg"
You can also look up what's called a deployment.properties file (or d.p). It usually goes into "C:\Windows\Sun\Java\Deployment" and you can list different properties that you'd see in the control panel. Then you can set the default values and/or lock that property so users cannot change them. Keep in mind that this d.p file is mostly broken in some of the latest builds of v7.