Through the veto power.
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One check the legislative branch has on the executive branch is the power to overturn a veto issued by the President. Another check is the Senate's power to reject presidential nominations.
Veto
The President has the power to veto or deny Congress's bill's passing.
i don't know the check
Both the Judicial and Legislative branch can check the Executive branch. The Judicial branch has the power of judicial review and can declare any act of the Executive branch to be unconstitutional and therefore void. The Legislative branch has a number of checks on the Exectuive branch. The President, the head of the Executive Branch, can appoint federal judges but the Senate must approve.
Congress has the power of legislative oversight, which allows it to check on how the executive branch is administering the law. Executive, legislative, and judicial are the three branches of the U.S. government.