Stability issues after installing the Java SE 6 update on Leopard

Hi, I have my macbook pro freeze once and not properly wake up from sleep twice after opening the lid within the last two days, and this started happening after I installed the Java SE 6 update over the weekend. In the case of freeze, I had to to a hard reboot. In the other two cases, the macbook comes alive after opening the lid but the display stays blank. I need to close the lid and open a few more times to have the display come back on. In all the cases, I was running Word 2008, which has its own set of bugs (esp. with the spaces), but I wasn't experiencing this before the Java update. I have all the other updates installed as well (including the Safari update last week, the latest Office 2008 update of March, and the EFI firmware update a couple weeks ago).
Does anyone have the same problem? Also, the jittery mouse pointer problem after wake from sleep, which used to occur occasionally since I first upgraded to leopard, seems to occur a lot more frequently now. The only solution to get the mouse pointer back to normal is a restart, which is quite annoying.

Hi again, I found a solution to the nested folders problem. Apparently this was not due to Java... It was just a folder replicating itself over and over again. Still don't know the cause, but searching with Google I found this:http://forums.macnn.com/54/unix/156870/nesting-of-folders-problem/
The command allowed me to find the folder and subsequently trash it. Everything seems to be fine right now. The disc utility does not report the "exceeded the recommended limit of 100 " error.

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