Yes, apparently, but he hasn't. Assuming you are referring to matter of newly tightened FDA guidelines impacting vaccine testing and approval the subject was really FDA "guidelines" not rules in the "rulemaking" sense.
The New York Times earlier claimed that the new FDA guidelines, which had been submitted to the White House Office of Managment and Budget (OMB) for approval, had been held up by Mark Meadows’s the president's chief of staff.
However, the following day, the OMB cleared the document, and the FDA published the guidelines. The New York Times follow-up article indicated that the administration has the authority to block the guidelines, but had only delayed them:
Trump administration officials have the authority to intervene with
such nonbinding documents, partly because of a 2019 executive order
that tightened restrictions over their issuance.
So it seems the president has the authority to override them, but chose instead to tweet criticism of FDA's commissioner's action to change the rules as being a political one.