Hey RicardoMusch,
I would recommend getting familiar with the Scripting Overview article from the Deadline Documentation. One of the first sections details the usages of the custom repository directory to store custom or modified script files related to deadline.
It’s not required to git track the custom directory or repo, but can make it easier for collaborating. I do it for my own sanity. For my git workflow, in addition to tracking the entire custom directory, I only track the specific submission and plugin repo directories I’ve copied/modified to the custom directory. This way I can diff changes to the vanilla deadline scripts after an update and apply them to the modified ones. Hope this makes sense.
Not sure if you saw this thread, but there are a couple of development practices described there as well as well as some recommends on which directories to track.
Hope this helps!
-Alex