Do you mean you're overwriting the automated JDK installation with another one?
If so, then even if I'm not absolutely sure Jenkins has code to revert to the pristine version, there's a better/cleaner way to achieve your need IMO.
When configuring the JDK globally, don't use the automated installer. Use the alternative where you can specify the URL of a custom zip (your custom JDK).
Then on any slave Jenkins will download and install your custom version from the configure URL.
HTH
Cheers
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