Medical procedures dealing with reproductive system are very controversial
Yes they definitely are. That is to be expected though, when people are virtually substituting male sexual organs for female ones, and vice versa.
My question is are they still human? When you have two females or two males because of the chromosome issue
Transgender people are most definitely still human. Some may call it a deformity, some may call it mental illness, but they are still human.
Yes I transgenger people are human but what about the babies thats born from this union
Of course they are. Any baby thats born to a human is going to be human as well. You cannot have a child unless female and male parts meet and converge. Whether you had sexual reassignment or not.
I am not talking about male and female  but both females and both males
Whereas some sexual change can occur naturally, most are done by choice. But 2 females and 2 males cannot have kids together, it is not possible.