Play the game irregardless of scratches.

Get a new glass made from the glass company near you, its cheap.

Clearly its ruined. Better sell it.

If it’s just the glass scratched that’s not too bad, $40 or $50 for a new sheet these days I think. If it’s pretty bad you could call your distributor and ask them to hook you up with a sheet (they should get it cheap in bulk) - kind of a judgment call I’d you feel like going back to them on something like this. Or try the TX thread and someone may be able to recommend a source in Houston, there must be several good options in a city that size.

take it back
obviously you have a Friday afternoon build, these are notorious for faults and flaws
you have only noticed the glass, by the end of the month you will find the fuses blowing and paint chipping off the legs

Are the scratches from sliding the glass out with the door open?

Are the scratches visible and a distraction when you are playing a game? Or are they a serious annoyance?

Where are the scratches in relation to the space between the flippers?

Are the scratches visible to the eye when you are standing idly in front of the pin?
or
Are you leaning closer in to have a more detailed look?

Is it anti-reflective anti-glare glass?

If you have to pay to fix it, how much would you be willing to spend? Try to quantify the "unquantifiable hassle factor" in your equation, also.

Is a new player to this pin going to notice these scratches? What about a possible buyer, sometime in the future?

You will find your solution somewhere in this group of questions.