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BpmnXmlHelper.getPrefixDuringSave maps different namespaces with the same last path segment to the same prefix, for example: 'urn:modelB' and 'urn:path:modelB' both have 'modelB' as default prefix. One namespace wins and is associated with the prefix, the others are forgotten. All QNames with the prefix thus point to the "winning" namespace, even those from one of the other namespaces. Solution: check for a clash and make the prefix unique by adding a number, e.g. "modelB_0".
Created attachment 182720 [details] mylyn/context/zip
Fix coming soon.
Fixed in 0fcc53c91ca996598ec75f554194fecaefd157de