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In the case related to the reported scenario, there were problems in the files themselves. In these cases you can disable Auto Hyphenation for the applied H&J sets, such as Narrow Measure, Standard, etc.
To turn Auto Hyphenation off:
If the text flow of a QuarkXPress or QuarkCopyDesk project/article is corrupted, inserting certain special character combinations can cause a crash. The best remedy is to correct the file corruption problem so that the text flow engine in these applications can function properly.