After Effects CC Multiprocessor rendering borked?

System: Mac Pro (3,1 early 2008), 20GB RAM, GTX6802GB -  OSX10.8.4
Hi. I've been working on a new project which I've started in AE CC. It all was working great at first, but in the last few days I've noticed that final rendering (using Multiprocessor rendering turned on) is getting slower and slower -  to the point where when I click on render, it takes 20 minutes to initialise - then doesn't even seem to use the render nodes that are spawned (activity monitor shows virtually no CPU usage from them). What's more, when it finishes rendering a scene, it throws up this weird error message:
Which can't be good - though the rendered quicktime is OK! The same scene backported to AECS6 renders with multiprocessing just fine. Has anyone else had similar issues? I'll have to switch back to CS6 until I know what this issue is.

I'll try rendering to a different codec later. CS6 works fine with ProRes - always has done. I'm running the latest version of the codec too (installed with the FCPX updates). I can understand why there might be issues with codecs that use interframe compression (Like h264), but ProRes uses I-Frames only.
Although Quicktime hasn't seen a lot of love from Apple recently, they are still upgrading the codecs - and it is the default transcoding option for FCPX too!

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