If an alt coin becomes valuable enough, hopefully its value wont be directly tied to BTC...although that seems to be the case now, I dont believe that will be in the future.
If your alt coin goes up in value you sell it and even if bitcoin is down youre still getting the same value in USD regardless. You would just have to sell to fiat immediately if thats what your goal was, so you dont lose money if BTC goes down or something...