Can you get the intonation tuned? If you cant for some reason you should try to trade it in. Learning on it will be kinda screwed up, The bad things that can happen when you dont have it intonated is if you try to use it in a band and hit some notes in unison with the bass or another guitar it will sound like nails on a chalkboard. I know i've had that happen before. Also chords will sound kinda nasty.
I am Comfortably Numb... :D
Oh yeah...STICK IT TO THE MAN!