The development team has been busy! 4.1.3 is now out and plenty of bugs fixed.

http://www.oracle.com/technetwork/developer-tools/datamodeler/overview/index.html

Bugs fixed (from the download pages):

22350565 String index out of bounds exception while importing structured type method bodies
22311829 Table report generating duplicate FK columns
22350611 Cannot select relationship/foreign key line
22339253 Change request report does not generate data in the report
22187312 Error when running design rules using Data Modeler version 4.1.2.895
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