Being an "occasional cynic", I question whether they gave your allocation to another person, ordered what that other person wanted, then the other person backed out, so they offered the other person's build to you as (opps sorry; here it is) yours...
I don't see how anything else makes sense. The specs were too far off. If that happened, they may also have pocketed the other person's deposit...which suggests they should be open to giving you a financial apology for you potentially accepting a compromise from your original build.
I doubt you'll ever be able to prove my suspicions above, however you should really question whether you want to continue dealing with this dealership. Are you planning to do warranty or any service work with them? Have you checked out their reviews? A dealership's reliability/culture usually starts at the top and filters its way down. You indicated the original sales manager is gone. Even so, I think his/her attitude often originates with the owner of the dealership, and if so, that doesn't bode well for your continued relationship with this dealership.
As for offering you something that's close but not your original spec, I wouldn't care about the other 2 differences but I'd worry about taking a tour suspension, since you could be reminded of your compromise, every time you get a different feeling from the road feedback. It troubles me the dealership isn't willing to work with you about the replacement (ie. wheel swap or cash apology), which reinforces its "I don't care about this customer or PR since I can easily sell the car to another" attitude. None of this is good.
That said, it's your choice and my comments above are made easier since I'm now driving the Emira I ordered. Sorry you've been put in this position and good luck finding a solution.