If you have Apps you've downloaded from Cydia, AptBackup by Chris Featherstone will make a list of all of your Cydia Apps then back that list up.  When you restore your iPhone and iTunes, run AptBackup's restore in order to find and reinstall all of your packages.

Features

Makes a list of every App you've downloaded from Cydia, then backs it up
Will restore all packages in one step upon iPhone and iTunes restoration
Limitations

Will not back up the actual Apps, or their settings (In order to reconfigure those parameters, you'll have to know how to access your iPhone, which we will demonstrate in an upcoming post)
Your Springboard file placement will not be saved
Can only restore backups right after your restore your iPhone and iTunes
Summary

You'll never know what can happen with your iPhone; one day it may work perfectly fine, and the next day it may crash and burn.  In the event of an iPhone crisis, it's good to have an insurance plan in place, and AppBackup and AptBackup are the best insurance plans you can have for your Apps.