what is the matter本身就是陈述语序, what”s the matter 或 what was the matter,表示“怎么啦”，语序相对固定。, 宾语从句里要采用陈述语序.



不管宾语从句是陈述句、一般疑问句或特殊疑问句，都要用陈述句语序，也就是说主谓次序不能颠倒。连接词＋主谓结构 



两个例句：

She wanted to know what was the matter.

I could not understand what was the matter with me.

上述例句摘自（张道真：现代英语用法词典）

不是的，有以下两种情况不要改变。

1：What's wrong(the matter) with you?

Which the way(answer) to the...?

EX:What's wrong with with the little boy?(she asked)

She asked what was wrong with the little boy.

2：对助于或部分主语提问所得到的特殊疑问句。

EX:Whose mother is the best at playing the violin?(we didn't know)

We didn't know whose mother was the best at playing the violin.

希望对你有帮助！