In my main UIViewController I am adding a homescreen view controller as subviews:
UINavigationController *controller = [[UINavigationController alloc] ini
Presenting view controllers using presentModalViewController or segues or pushViewController should fix it.
Alternatively, if for some reason you want to present your views without the built-in methods, in your own code you should be calling these methods manually. Something like this:
[self addChildViewController:controller];
BOOL animated = NO;
[controller viewWillAppear:animated];
[self.view insertSubview:controller.view atIndex:0];
[controller viewDidAppear:animated];
[controller didMoveToParentViewController:self];