Migrating to a new mac

Hi!
I just installed my new macbook pro, which runs Snow Leopard and CS4, and I was wondering what was the best way to transfer my documents and preferences from my old macbook pro which runs Leopard and CS3. Obviously I don't want to migrate my system, my apps or my Adobe preferences, but some of my preferences for other apps and my documents would be nice. Should I use migration assistant? From my old computer, or from my Time Machine backup? Is it going to transfer everything automatically (I suppose I won't be able to pick and choose "transfer Transmit and Mail preferences, but not Photoshop's!") and if yes, will that overwrite Adobe's new library folders and create problems? I'm a bit confused about that part and wanted expert advice before I proceed!
Any advice would be greatly appreciated!
Thank you!

I didn't migrate on the first start... does it make a difference with migrating now?
As for the PS license, it was a friend's with CS3, and my own with CS4, so it's not an update and I don't need to release anything
Thank you for your help, both of you

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