The only examples I've been able to find were backing Suharto in the invasion of East Timor and backing a coup in El Salvador, both of which are regrettable but

The only examples I've been able to find were backing Suharto in the invasion of East Timor and backing a coup in El Salvador, both of which are regrettable but are essentially as you say par for the course in terms of the US 20th Century foreign policy (albeit far tamer than the actions of his predecessor and successor).