If your computer has a light for the disk, does it flash like it's hammering the disk drive during that time? Or does it sit there not blinking for ages? Might help narrow down if it's just doing something new or if it's an installed program not playing nicely with the latest update.
Click on the Windows button and start typing msconfig until the System Configuration application becomes available and open it.
You can take a look at what Services are running - do you notice anything new/strange etc which you can turn off. The Startup tab is now in Task Manager there is a link to open it, here you can see if there is anything new added to the startup-sequence on boot which might be hogging processor time.
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