ITunes insists on rearranging my iPad apps, even with 'Sync apps' unchecked

Here's an issue which I've noticed crop up on a few other forums, but which there doesn't seem to be a definitive answer for. I'm hoping that one of the veterens on this forum might have come across it and figured out a fix...
Since iCloud launched, I've not had any need to use iTunes for any app, music, video, podcast or book syncing. I have automatic downloading enabled on both my iPad and iPhone, and that's worked very well. Download something on one device, and it appears on the other. Wireless backup to iCloud too. All good.
There's just one thing I do still rely on iTunes for - and that's syncing photo albums and events created on my Mac in iPhoto to my iPad. I'm hopeful that at some point Apple will enable iCloud syncing for iPhoto albums (especially seeing as iPhoto is now available for iOS), but for now I'm stuck with using iTunes to move new albums and events to my iPad.
Here's the thing. Given I have automatic iCloud downloading enabled for pretty much everything, I have the following sync options turned off in iTunes:
Info
Apps
Tones
Music
Movies
TV Shows
Podcasts
Books
The only item that is checked is Photos.
So once I'm ready to sync a newly created iPhoto album or event to my iPad, I fire up iTunes, select my iPad in the devices list, make sure that the new album/event is checked under the Photos tab, make absolutely sure all other sync options are unchecked, then I hit the sync button.
And about half the time, this will go well. And the other half... well, disaster. iTunes will decide that it doesn't like my iPad apps arranged in the order I have them, and will rip them from their folders and scatter them across a ton of homescreens. The result is about an hours worth of work to get them all back in place again, just so I can enjoy having my latest photo album on my iPad.
I can't figure out why this happens. When I have app syncing unchecked, I'm specifically telling iTunes to leave my apps well alone. I have no interest in syncing apps to/from iTunes and my iPad. iCloud takes care of this for me now, and I have no reason to even have a copy of an app on my Mac. I can't do anything with it once it's on there.
Has anyone come up against this issue and found a fix?
Alternatively, and perhaps preferably, is there another way to move albums and events created in iPhoto to my iPad, without using iTunes? I know iTunes wants to be the be-all-and-end-all of syncing beasts, but now I have iCloud I have no use for it aside from photo syncing.
Thanks in advance to anyone who can help here!

I'm starting to think that the lack of replies is due to the fact that nobody actually knows why this behaviour is, including Apple themselves.

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ITunes insists on rearranging my iPad apps, even with 'Sync apps' unchecked

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