Trump blasted the lower court ruling on Thursday in a social media post, writing: "Hopefully, the Supreme Court will reverse this horrible, Country threatening decision, QUICKLY and DECISIVELY."
Wednesday's decision by the little-known trade court in New York would void tariffs imposed by Trump in February on goods from China, Mexico and Canada, which he justified as a move intended to address a fentanyl smuggling.
The lower court's decision would also dismiss a blanket 10% import tax that Trump unveiled last month on goods from countries around the world, together with higher so-called reciprocal tariffs on trade partners, including the EU and China.
The 1977 law Trump invoked to impose many of the tariffs, the International Emergency Economic Powers Act, did not allow for such sweeping levies without input from Congress, the lower court said.
But its ruling did not affect Trump's tariffs on cars, steel and aluminium, which were implemented under another law.
The White House has suspended or revised many of its duties while trade negotiations grind on.
But the appeals court decision allow the tariffs to be used for now while the case is litigated. The next hearing is on 5 June.
On Thursday, another federal court overseeing a separate tariffs case reached a similar conclusion to the trade court.
Judge Rudolph Contreras found the duties went beyond the president's authority, but his ruling only applied to a toy company in the case.