After re booting will the market atomaticly down load my apps or do I have to do something to do it myself
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If you have sync turned on and are backing up your data with Google it should download automatically after you've signed back in. Once it starts, though, set the phone down and let it download for half an hour.
Titanium Backup will back up your apps but not your ROM. Your recovery image will back up your ROM when you make a Nandroid or Clockwork backup.
If I'm not around I'm sure someone will be soon enough to answer them.