New Media Encoder Error: video and/or audio filters are missing...

My colleague reported this error popup window while using Adobe Media Encoder CC (up-to-date):
"video and/or audio filters are missing and the rendered output may not match the original"
I've been seeing similar errors the past few days. I can't remember if the wording was the same in the errors I saw, but the circumstances were the same.
I've never seen this popup error before the most recent CC update.
Some background info:
I queued up multiple Premiere Pro pproj files as usual from within Premiere
without rebooting or deleting any cache or temp files or anything, I start the queue
I have no special plugins installed in Premiere. Vanilla CC install.
Windows 7, 64-bit
This error doesn't tell me what audio/video filter(s) are missing. The output files, once I dismiss this warning, are perfect.
The major problem: It stops the queue dead in it's tracks. Sure, it might seem handy to stop and give you a warning, but when it's a false report and there's nothing wrong, it's killing us, because we queue up multiple files for encoding overnight, and we're not here to get the popups.
What is likely causing this? Is it a bug that this is appearing so frequently? Has anyone else experienced this besides my colleague and I?
Thanks!

Update for anyone experiencing this issue:
We are still investigating the cause of the issue and would really like your help tracking it down. If you run in to it I would be happy to jump on the phone with you and preferably do a screenshare as well. If you want to run some tests for me, this is what may help us track it down:
0. Please make sure you are updated to the latest version of Premiere Pro and AME, which at this time are Premiere Pro 7.2.1 and AME 7.2.
1. Simplify the project. Create a copy of the project and eliminate anything in the project that isn't related to the sequence(s) you are exporting. Then run the encode again. If it still occurs, move to the next step. If it doesn't occur any more, repeat step one and only remove half of the unused items (sorry, this is giong to be a manual process). Rinse, repeat.
2. Open your sequence in Premiere and press Cmd/Ctrl + A to select all clips in your sequence. Right click and select Remove All Effects. Export again. No repro? Go to step 4. If it still repros, go to step 4.
3. Make all the media offline. Export again. No repro? Go to step 4. Repro? Go to step 5.
4. Send me a message with as much detail as possible. Even better would be if you could provide me a copy of your project file.
Your help in tracking this issue down is greatly appreciated. Thank you.

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