Not being satisfied with the appearance of an "Assignment" resource (didn't like frame border) and being too dumb to figure out how to change this in code, I created the activity as a "Resource" (didn't need upload file control). I knew I would be sacrificing Glossary links and wondered if there was a way to work-around this. Quite by accident my wondering was answered. When creating a webpage in my editor I like to paste text into Word to check spelling and grammar. The first time I did this was from an Assignment module text, and surprise, Glossary links were preserved with URL's.
Here is an example paragraph from one of my Resouces files with two hyperlinks. Notice they appear as though they might be part of Moodle.org's glossary, but are in fact from my site Glossary. Checking the context menu (right click) reveals the path to my Glossary.
Thomas Moore is both a scientist and a deeply spiritual person. Moore spent 13 years as a Catholic monk, preparing for life in the clergy. Shortly before ordination, he left the order and decided to become a psychologist. Moore went on to finish graduate school and complete post-graduate studies in Jungian analysis, before going into teaching and then private practice. He brings a background as spiritual mentor, educator, scientist and caregiver to his classic book, Care of The Soul.
When I first did this, I stored my webpages in the root direcctory and not in Moodle. I quickly realized they were not secure in this location (not that it mattered) and uploaded them into the course File storage area. Presumably a web crawler will not be able to access and index these pages because they would require a login, just as you cannot access the above sample terms.
By storing non-secure webpages in root (or possibly the Glossary itself) a web crawler should be able to index Glossary links. As Tom pointed out, this presents some interesting possibilities for global Moodle Glossaries, something like a google for Moodle (moogle).