Welcome to EiC!
You've found one of the most annoying issues with the iPhone - Notes are not synced with any app on your Mac or anywhere else. Not iCal, Mail, nothing. They are instead part of the back-up file created when you sync your iPhone via iTunes and go back to your iPhone when restoring from a back-up.
It sounds like you've already gone ahead and restored your iPhone, but you should make sure you have a very recent back-up in iTunes before you do this in the future. You can check by going to the Preferences in iTunes and looking in the Devices section - there you'll see the latest back-ups saved for your iPhone.


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