Alan granted me commit rights, so I have updated the org.sciencecommons.lisp.protege plugin to a (hopefully) fully working version. Instead of breaking ABCL out in a separate OSGi bundle, I included it in the org.sciecommons.lisp.protege bundle directly as a) I'd like to get ABCL out to the Protege community for use who probably couldn't care less as long as they have a Common Lisp plugin, and b) working through the threading/isolation issues doesn't look like a quick task.
Attached to this mail is a tentative README cobbled together from Alan's initial emails.