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To avoid partial installations of Mylyn when the EGit Mylyn integration is installed the org.eclipse.egit.mylyn should have a dependency on org.eclipse.mylyn.team_feature and org.eclipse.egit.
Will take this.
Too late :) http://egit.eclipse.org/r/#change,3939
Merged as 25d910ea84a1857ab53046c3580417727ebe75e8. Thanks Steffen.