Actually, as I reread this, you may be right.
Still, it doesn't make sense that Congress could govern the USSC in matters that the United States is a party to. It allows Congress to stack the deck.
It's more like shifting the deck around. There will always be a federal court to hear a case that involves the United States. In any case, that's not the reason Congress would be making exceptions to any court's appellate jurisdiction. Judicial activism has never been a problem in regard to federal laws, just state laws.