yes, the stock shifter has abit of slop in it.The trans also takes some getting used to, its very "notchy" espically when its new.I also think he is experiencing the "skip-shift" feature.
If you try to shift from 1-2 under 3k rpm, certian throttle, and temp postions the trans will block 2nd gear and force you to shift from 1-4. Its is very annoying and I suggest you get a skip shift elininator. Its only $15 and installs in a few min.The hardest part is jacking the car up lol. This is a must for these imo. Here's an ebay search:
Link Just driving it more will help too. You have to get used to how it shifts. I have ~4500 mi on mine now and I can make it shift nice even with the stock shifter.
get out there and put some miles on her