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What *would* scare me away from Ms GitHub? A change in policies. Banning of repositories that are borderline legal. But nobody did that. I'm not talking about those that are ethically illegal (think DRM breakers). Those shouldn't rely, or corner, a legally-bound company.
I don't get the panic. It's freaking Git. And there are ways of pulling issue data out. If you're large enough that migrating issues and PRs would be a huge mess, you're big enough to self host. Otherwise, you're small enough you can just git push $elsewhere if shit hits the fan.
And if your company private repos are sensitive enough you don't want @Microsoft to be able to see them, you don't want them on @github either.
Not that they'd be snooping through them. But you're either fully paranoid or not at all.
If you need private repos, you should be self-hosting, period. Not just for privacy, but also reliability. I used to use @gitlab and gave up after the Nth time I couldn't deploy some code because they were down.
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