Given the IAAFs statement and the inevitability that Semenya would appeal I don't think this is anything to get too het up over. Before this goes through finally all angles have to be looked at, very closely. It is not unexpected that CAS would be asked to be sure they had followed their own procedure fully, this is a groundbreaking case that has been in the making for over a decade. Nobody wants it thrown over on a technicality.
It may be unfair now but it is still within the law as it stands. In a year or two that will have changed. Once the legal avenues are exhausted the science will remain and, as the IAAF have stated, men will not compete as women.
Whatever we think of Semenya it is important to remember that this is all only possible because of the scientific ability to be so precise and certain. That research was asked for and completed and is now driving this change in athletics law. More changes will follow. Nothing has been covered up by the IAAF or CAS, they have just waited until the evidence was in. The appeal is probably accepted as necessary by most people involved.
I just wish this last bit would hurry up.. and actually be the last bit!