When I made these corrections to the illustrator eps file, the quark file in turn had no problems printing to a variety of rips.
But, to answer John's question, when brought into another quark document, sometimes the color showed up, other times not. It was very hit or miss. And if you removed the color from the Quark color palatte, then re-imported the picture, you still had the same problem. The file would act like it didn't exist.
However, spot colors will print when not printing seps. It would be necessary then to Surpress Output for the template.