Having problem with "windows on top" in jre 6 update 12

I'm having issue with the jre 6 update 12 with our Swing application. It works fine with update 11. The issue is that my JFrame is somehow getting set to be "always on top" once I've opened an closed a modal dialog from that JFrame. Here is the steps:
1) Open a JFrame (note the "alwaysOnTop" is not set to true).
2) Click on a button which will open a modal dialog.
3) While the dialog is open click on the underlying JFrame (nothing happens as modal dialog is blocking it).
4) Now close the dialog and suddenly the parent JFrame is now set to be always on top. This won't happen if I didn't click on the parent JFrame while the dialog was open.
Has anyone else encountered this issue with jre 6 update 12? I'm really puzzled as to why this is happening. There is nothing in the release note to suggest there has been any change in this area in this release. Any help would be much appreciated?

This is a duplicate of http://forum.java.sun.com/thread.jspa?threadID=5199159, which is (more appropriately) posted in the Web Start forum. Post any replies there.
Please do not duplicate your posts.

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