Considering this Starkiller is actually a clone, don't you think it sucks for the "real" Starkiller that a clone got his girlfriend? He probably turns up as a Force Ghost to haunt clone Starkiller for the rest of his life.
Well - from the Dark Empire series, we learned that Palpatine had been transferring his consciousness from Clone Body to Clone Body.
When playing the game, if the main character did indeed end up being a clone, then I always thought it was possible that the consciousness of Starkiller from the first game had transferred itself to the clone you were playing as.
However, taking the Light Side ending of TFU2 as "canon", since we never really see a "perfect" clone of Starkiller, it's still entirely possible that you weren't a clone at all, they never really answered that question 100%. Vader tells you that you are a clone, but his last taunt aboard the Rogue Shadow isn't about trying to make you think you're a clone anymore, it's that he'll always have power over you as long as Juno lives.
Did the novel (or comic, if there was one) ever definitively answer the question of whether or not you're a clone in the second game?