I'm getting a lot of random bright green or purple flashes. In the flash the frame is be flipped upside down. It's happening in a lot of sequences. It even shows up after I export. I don't export until it completly finishes rendering.
I presume you are using one or more plugin effects in your sequences. If so, unfortunately this is a bug. The simplest way around it would be to render directly to Compressor for any sequence that is showing glitches.