We shot 3 days with the Canon 5D last week. It looks awesome. I highly recommend it. Here was our workflow:
1. Record separate audio at 48048, stamped at 48000. This is possible with some audio recorders even if you’ve never noticed it before. Check your manual.
2. Copy contents of CF card to hard drive.
3. Convert h.264 QTs to ProRes HQ QTs using Compressor.
4. Use Cinema Tools to batch conform QTs from 30 fps to 29.97
5. Sync in FCP.