We have SCREEN support ready to deploy which will eliminate this problem
Instead of GC simply executing the process, you can optionally start the server under a screen session, which will mean that any child processes (eg, wrapper scripts) are also run under the screen.
Then when GC goes to stop the server, it stops the screen, and everything under it.
You also get the benefit of being able to view the screen and server console which is handy.
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