The TSA does not check for warrants for local US residents. However, that is not absolute either. They might request immigration authorities to give access to the State crime database to confirm any outstanding warrant(s) on the supposed person. Therefore, we advise you not to risk travel with an existing warrant.
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All airports in the United States require security protocols that include checking their databases for passenger information and any outstanding warrants among them. For domestic flights, your name will appear in the database along with your arrest warrant, preventing you from boarding the plane.
Travelers facing charges may not be able to travel to Mexico. Similarly, people with warrants and those on probation or parole will likely be denied entry.
If a screening is conducted, it is done at the direction of the Transportation Security Administration (TSA). It will rely on the TSA's identity identification and risk assessment. The TSA conducts pre-boarding screenings of passengers utilizing government and private databases that contain personal information.
When you board a cruise ship, a manifest of passengers is sent to US Customs and Border Protection. This list is routinely checked for outstanding warrants. Any passengers with outstanding warrants are arrested upon their return. When you return from a cruise, you must go through immigration.