How do I back up iPhone and apps to an external hard drive?

Hi -
I have a very small internal hard drive in my good ol' G4, so I have my iTunes music library on a 160 GB external (I'm backing the library up to a second external).
I have such limited space on my internal that I want to back up my iPhone and my wife's iPhone to the 160 external, but I can't seem to figure out how. All the apps land in Users > (myaccount) > Music > iTunes > Mobile Applications. I'm familiar with the iTunes Preferences > Advanced function where you change the location of your music library, but I haven't been able to get this to work for iPhone apps.
Also, when I back up my wife's phone, any applications that I've downloaded directly to my phone and then later backed up are being loaded into her phone. How do I prevent this?
Thanks a lot for some help.

You can just copy the app files in the folder where they are stored and move them over.
If apps you downloaded are getting put on your wife's iPhone then it sounds like you only have one iTunes account for both of you. With your wife's iPhone connected go to the application tab and uncheck apps she doesn't want.

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