I'm having the same issue and I found out the reason, at first launch if the app didn't asking a user for any kind of permission (Access Location, receive notifications.. etc) app is not listed in iPhone Settings.
But after asking a permission from user app is listed.
This is why app some times (after first launch) is showing iPhone Settings rather than app settings.
I'm still looking for work around for this issue.
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I had the same issue and found out that in info.plist there were a hardcoded version number instead of variablelook for 'CFBundleShortVersionString' and change its value to '$(MARKETING_VERSION)'then you have to go to your Project Identity and you will notice the version field is empty, just write yours there and run the app.