This is not a complete answer that forces Cordoba to do this automatically. But I went into my .plist file for iOS build and added:
UIStatusBarHidden = true UIViewControllerBasedStatusBarAppearance = false
This makes him behave correctly and is not overwritten by Cordova when I do the assembly, so it will work for now.
If someone finds or knows a better way to enforce these parameters, feel free to post it, and I will either update this answer or choose your next time I notice it. Thanks!
gokujou
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