Hi Alan,
Is there any way to convert a set of raw files and save them as Prophoto color space and 16bit tiff files?
QU is an 8 bit program but you can convert to any colour space you like in the Convert Images dialogue.
There is a screen shot in this post
http://ddisoftware.com/tech/qimage-ultimate/colour-profiles-in-files-converted-to-jpg/msg12764/#msg12764I assume you are wanting to do significant "fancy" editing outside QU, hence 16 bit.
If not, then you can print from the raw and, assuming it's available, use a custom camera profile in QU for raw processing. Also, I'd point out that QU does have an image editor that works on the raw image that has most of the basic tools and more including the unique Deep Focus and Tone Targeted Sharpening.
You might like to read Mike's article that covers 16 bit printing and large colour spaces here:
http://ddisoftware.com/tech/articles/september-2009-digital-photography-reality-check-308/Terry