After HDD Upgrade and Restore from TM, Not Seeing critical Software Updates

I recently upgraded my Hard Drive from 250GB to 320GB (my bro had one laying around from another MBP). I restored from my TimeMachine Backup and everything went very smoothly.
However, I now noticed that there are some issues:
1) I am *still* running Safari 5.1.3, 5.1.4 was released weeks ago and it is not showing as an option to update in Software Updates.
2) There is a very critical Java update that I really need to install that is *also* not showing up in the list of available Software Updates.
3) When restoring from TM Backup, it doesn't create the Restore Partition automatically.
I was able to fix Item 3 above by simply downloading and reinstalling Lion, nothing was bricked on my machine or files lost from my reinstalling.
However I am at a loss as to how to fix Item 1 and 2 above.
Any ideas? Apple Gurus?
Thanks!

Hi current:
Yes it is. I tried it (as a test for myself) a couple of weeks ago. I admit I had a current bootable clone in case something went cuckoo.
I made a current TM backup and then erased my internal HD. When I booted from my software install DVD, I was given the TM restore option. I did not reinstall OS X on my internal HD first.
It worked perfectly for me, by the by.
Barry

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