Or, instead of using FileVault, you can just use an encrypted disk image that only stores your personal data. It sort of replaces my Documents folder, and I also replaced ~/Library/Mail with a soft link to a Mail folder on the encrypted image. Just set the image to mount automatically on login, and it all works just as transparently as FileVault. Only without the problems with disk corruption on sparse images (you can use a fixed size image instead).

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I've been using FileVault on my MacBook for a couple of months now and I have yet to see any problem.

I do agree though that a regular backup of the contents of the FileVault home directory is a very prudent idea. And of course you need to make sure that the security of the backuped data is sufficient too.

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