ITunes 11, deleted apps will not sync. (using sync cord not iCloud)

iTunes 11 will not sync the apps that I have deleted. I have tried an iphone 5, my wife's 4S and my sons 4 same issue applies.
It will sync new apps no problem. it's just the ones that I have deleted or removed that will not sync.
I need to delete it from the phone and from iTunes to make it go away. I can't just deleted from one and then sync like I used to in iTunes 10.
I have seen one other person with this issue but I know iTunes 11 just came out. Anyone else having this problem or has figured anything out?

Do you know what, I think that this *is* enough for me to look elsewhere.  PhotoStream doesn't work for me, so that has been a major annoyance which had taken time to try to resolve (unsucessfully) and now they have made something that I do regularly 4 times more time consuming for me.
I have a work iPhone, my own iPhone, and an iPad.  Perhaps I'm unusual in having several iOS devices hooked to the same iTunes, but what this means is that if I want to delete an app, whereas before I only had to delete it in iTunes and then sync my 3 devices, now I have to deleted in iTunes, delete from my work iPhone, delete from my own iPhone, and delete from my iPad.
It's stupid, idiotic, and frankly rubbish.  Sure, I'm invested in the iOS world with probably a couple of hundred of pounds worth of apps, with TomTom and so on, but guess what - that is only a fraction of the cost of a new device, so really, when it comes to it, it's nowhere near enough to keep me on iOS.  Real alternatives are available now, in a way that they weren't 4 years ago, and although "they" may say "it's not much of a hassle", really, why should I have to put up with any hassle?

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