Hours after Saturday morning’s U.S. military raid on Venezuela’s capital, Nicolás Maduro and his wife landed in Newburgh, N.Y., on a Justice Department jet to face an indictment that charges them, their son and three other men with cocaine trafficking and narco-terrorism crimes.

From the secretive realm of military special operations, the case moves into the mundane world of Federal District Court in Manhattan and the grimy environs where defendants are detained before trial.

Some of what happens next is predictable: The defendants will be taken before a judge and probably enter a plea of not guilty. The judge will almost certainly order them detained pending a trial that could be more than a year away.

But the extraordinary nature of the case makes much unclear.

Attorney General Pam Bondi announced the indictment Saturday morning, thanking Jay Clayton, the U.S. attorney for the Southern District of New York, where the indictment was returned. President Trump later raised the question of where the defendants might face justice.

At a news conference, the president raised the possibility that the defendants could be put on trial in Miami.

“They’ll be heading to ultimately New York and then a decision will be made, I assume, between New York and Miami or Florida,” Mr. Trump said, without elaborating.

In either case, Mr. Maduro and his wife, Cilia Flores, are expected to make their first appearance in Manhattan federal court sometime soon.

It could not immediately be determined whether Mr. Maduro and Ms. Flores had retained lawyers or will have counsel assigned to them.

If the case remains in Manhattan, the U.S. attorney’s office, led by Mr. Clayton, will handle the prosecution. The case has been assigned to Judge Alvin K. Hellerstein, a veteran of nearly three decades on the federal bench who was appointed by President Bill Clinton. The charges were based on an investigation by the U.S. Drug Enforcement Administration.

The Southern District has long been the site of trials of notorious defendants, including accused terrorists, mafia figures and corrupt politicians. Even the former president of Honduras, Juan Orlando Hernández, was flown to New York and tried and convicted. (Mr. Hernández was pardoned recently by President Trump.)

A Manhattan trial of Mr. Maduro would be held just a few blocks from City Hall. On Saturday, the city’s new mayor, Zohran Mamdani, sharply criticized Mr. Trump’s actions in a statement.

“Unilaterally attacking a sovereign nation is an act of war and a violation of federal and international law,” Mr. Mamdani said.

While the mayor has no role in a federal prosecution, Mr. Mamdani said the president’s attack “directly impacts New Yorkers, including tens of thousands of Venezuelans who call this city home.”

“My focus is their safety and the safety of every New Yorker,” Mr. Mamdani said, adding that he would continue to monitor the situation.