Every example I see with だれ and a copula has だれ placed at the end (あの方はだれですか。)
Will changing the order to だれがあの方ですか。be acceptable or mean something else?

Also, how do I write "Who has A car?" I want to say だれがくるまがありますか but it looks
odd having 2 が particles.
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grammar
Help with question word だれ
~~For the first question, no, you cannot reverse the word order. It becomes
ungrammatical.~~

As for "Who has a car?", `だれがくるまがありますか` is fine even though this makes two
`が`s. Note that you can replace the first `が` with `に` if having two `が`s
bothers you.

> だれ **に** くるまがありますか → "Unto whom is there a car" / Who has a car?

See [this post](https://japanese.stackexchange.com/q/4440/78) for info on
replacing `が` with `に`.
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> Will changing the order to だれがあの方ですか。be acceptable or mean something else?

Yes, it is OK to put "dare" like that. I think the meaning change can be
translated like this:

誰がボスか。= who is the boss? (which one of these people is the boss?)

ボスは誰か。= who is the boss? (what is the identity of the boss?)
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I am a native Japanese speaker who has lived in Japan for 27 years but I have
never heard anyone say だれがあの方ですか. Let's say you and your listener have talked
about a specific person "A" before, and there are many people in front of you
including the person "A." You want to know which one is A, and then maybe you
would say だれが"あの方"ですか, referring to the person A(=あの方)? In that case,
だれが例の方ですか is usually used though.

Whenever you are pointing one person and want to know who that person is, just
use あの方はだれですか.
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First of all, as you probably know question words like 誰、どこ、どれ、何、なぜ etc cannot
be part of a topic (cannot come before は).

誰はあの方ですか:☓

あの方 is your "topic" because you are moving the conversation topic to them when
you are asking who they are.

あの方は誰ですか:○

誰があの方ですか:/

While 誰があの人ですか is not technically grammatically incorrect, it is not properly
worded because あの方 is your topic, and saying 誰があの方ですか sounds as if you're
trying to say 誰はあの方ですか and remembered to change it back to が at the last
minute.

だれにくるまがありますか:/

Not technically grammatically incorrect, but here you would usually say
誰か、車がありますか？/誰かに車がありますか, because you're looking for a person who has a car, not
the person who has the car.

Now, say you're looking down a car that is double parked and are angry.
誰の車ですか！Now this would be a little strange, but say you are in an isolated
situation where there is a car and you are trying to figure out whose car it
is and it can only be one of the four people sitting in front of you.

だれに車がありますか？"Who is it that has a car?"  
だれかに車がありますか？"Who has a car?"

That's the nuance/difference there.

As for an example that uses 誰が... (unless you're using it in place of の -
誰がために働いていますか - "For whom are you working for?") - it would be hard to think
of, as the topic is always the person you are asking about. If you insist on
having 誰 come first: 誰ですかあの方は？ but this really does make you sound angry
because of the stress it puts on the 誰 ^o^;
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■ あの方はだれですか。  
For example, you don't know the man. And you asked someone about it.  

Who is that man? => あの方は、だれですか？  
Who is he(she)? => 彼(彼女)は、だれですか？  
What name is the man? => その方は、なんという名前ですか？  

■ だれがあの方ですか。  
For example, you know the man. But you've never met the man. And you asked
someone about it.  

Which man is John? => どの方が、Johnですか？  
Which man is the man? => どの方が、その方ですか？  
Where is the man? => その方は、どこですか？  

■ だれがくるまがありますか  
I think this is little wrong. But i can guess what you want to say.  

だれがくるまをもっていますか？ => Who has a car?
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