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There aren't really alternatives to being very very careful, tbh. But it's a bit of a smell that there are secrets kept alongside your source code. There are cases where you might want secrets in git, but if they're there on purpose you'll hopefully be doing something about it, like encrypting them first. git-crypt is useful here.
Install git-secrets. Go into each of your repos, scan for past mistakes, and add a git-commit hook:
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