I agree with your principal statement: that tuning could be beneficial after headers/exhaust work. But unless you already have access to tuning software (ie.already own hp tuners or dhp) I wouldn't pay for a tune for just exhaust work and a Cai or Hai. Once you drop pulleys then definitely. But how much is a dyno tune? 500? Overkill pcm is 200 minimum still. Not worth it for just flow mods.
Drop pulleys, then tune at the same time. If your not doing that then roll as is.