We have somewhat abandoned Photo-JPEG for an entirely DVCPro50 workflow. We think the file sizes are manageable and the codec holds up to abuse (layers etc). If we are working in uncompressed 8 or 10 bit we stick to that codec in between.
Disk space has become so cheap it does not make sense to do as much transcoding as we might have done in the past. We also prefer the compression of DCT type codecs rather than the destructive Jpeg codecs. Although PhotoJPEG is a respectable codec, it can create color shifting when brought between apps.
Rich Rubasch
Tilt Media