Don't accept anything less than a perfectly intact NIB machine! I am guessing you paid a NIB premium with the thought that your extra $$$ would buy a little peace of mind and avoid the potential pitfalls of buying used, and I don't think it is unreasonable to expect to receive a NIB machine in "new" (i.e. undamaged) condition (some people here will disagree with this position and even insinuate that you are not committed to the hobby if you don't simply fix it yourself without complaint). To be clear, these things are largely handmade out of wood (with all its foibles) and some minor variation unit to unit can be expected, but when the flaws rise to the level of overt damage, improper assembly/finishing, or functional issues I think it needs to be fixed properly.

If the game was abused enough in transit to cause that crack (I'm guessing it was dropped at some point), odds are high that there are other things jacked-up too.

I personally would NOT simply ask for decals and "learn to live with it"! This kind of passive approach only serves to embolden their ambivalence toward QC issues, and leaves you with a flawed game from the get-go! Sure it's reparable, but it will never be quite the same, and given that the cabinet provides the basic physical structure of the whole game I'd want a flawless one given how much NIB machines cost these days. (Also, don't underestimate the difficulty of applying decals! It's not "hard" per se, but it can be surprisingly tedious and definitely requires some practice to achieve results as good as the factory produces - I've done a couple, and while my work acquitted itself well enough on well-used "player's quality" games it would have looked like the amateur-hour job it was on a NIB game.)