Getting 5D Mark II Video From Aperture to iPad/iPhone

Question

I’m looking for some help on my workflow.  I’d also like to know if I’m actually just missing something in the way iTunes handles syncing video from an Aperture library to an iPad or iPhone.  Video, and specifically video from my 5D Mark II, is what’s causing me trouble.  I think the actual issue is the manner in which iTunes handles the 5D’s video, but maybe you can fill in some of the blanks for me, and offer a suggestion or two. 
CURRENT WORKFLOW
I’m ingesting to an Aperture library via (1) Photo Stream (for still images from my iPhone 4S and iPad “3”), (2) PhotoSync for videos from the same two iOS devices (it’s an app that allows WiFi transfer from device to laptop, etc.), and (3) via CF card from the 5D to the laptop, over a FireWire reader (stills and video).  Once everything’s in Aperture, I add metadata, assign ratings, add keywords, make adjustments, and set up Smart Albums to make it easy to pick what to sync to my iOS devices (the two listed above, plus an iPhone 4 and original iPad for others in my household). 
ITUNES SYNC ERRORS
I use iTunes to select the Smart Albums and whatever else I want to sync from Aperture, and sync over WiFi.  In choosing the photos, the box is ticked to include videos.  Several videos sync without trouble, but it appears that they are limited to those shot on an iPhone or iPad.  The videos that came from the 5D throw an iTunes sync error, that basically says:  “Some of the videos in your iTunes library, including the video [file name], were not copied to the iPad “[name of iPad]” because they cannot be played on this iPad.”  A disclosure triangle below that text reveals the full list of files suffering this fate. 
There are two problems with that error message.  First, the 5D videos are not actually in my iTunes library -- they’re in an Aperture library, just passing through iTunes on their way to one or more of the iPhones or iPads.  Second, the videos actually do play just fine on the iOS devices.  I know this because a friend suggested I test it by transferring the same 5D video file that would not sync over to the iPad a different way.  I used Dropbox to get the file onto the iPad, and once there, it played just fine. 
REQUEST FOR HELP
So, first, is this behavior as it should be?  I’d think that a video that plays fine on the device, and fine on the Mac, should have no trouble syncing from the Mac to the device., but perhaps you can explain why I’ve got that wrong.  Second, am I right to figure that iTunes is the culprit here?  If so, what exactly is it doing?  Third, and assuming there is no fix for what’s happening, what’s the best (most automated) way to get those videos onto the iPad?  I keep the stills and the videos all together, organized chronologically on hard drive, and I’d like to keep it that way.  I’d also really prefer leaving the 5D videos in Aperture. 
The best I’ve been able to even sketch out mentally is to try a Smart Folder in Finder that can identify and distinguish the videos from the 5D vs., say, an iPhone video.  Then that smart folder somehow gets synced to something that lands on the iPad.  That’s just a loose concept; I’m not sure how to execute it, and I’m not sure how much trouble it would be.  If you can help me figure out how to do this, or if you have a more elegant solution, I’ll be in your debt. 
Thanks for making it this far, too!

Answer 1

I got exactly the same problem (same config. and workflow but the wifi sync).
I manage to workarround it, as you anticipated, by a Smart Folder where I filter the 5D videos like this:
"Add Rule" -> "Aperture Metadata"
"Aperture: [Aperture Filename] [Is not empty an does not contain] [MVI_]"
Please, Apple guys, consider our concerns as a bug in the "Liberal Arts / Tech" cross. Yes, I know it could yield a way to introduce piracy video to the photo/video viewer on iOS, but we need a way to do it with our own video creations without workarrounds.
Thanks in advance.