How to sync 2 apple devices on one iTunes account?

I have an iPod touch 4. And just recently got an iPhone 4g. I have 32GB on the iPod, I have all the music I want and games on there that I please, however my iPhone is only 8GB. I only want to download a couple apps and about 100 songs onto seeing as how the memory is so limited. I unchecked the apps so that they wouldn't not ever sync automatically, but when I synced my iPhone it immediately tried downloaded 200 apps that I all used to have on my iPod. I went on the apps and deleted the apps I don't want on iPhone and only had 20 left over. I synced and I got all I wanted on iPhone… However now I'm afraid to sync my iPod in fear that's it gonna delete all my apps until I just have the 20 that I have on my iPhone.

Just select what you want during the sync and click apply. Not meant to be this difficult.