I am of the mind that the USA's branches should be broken up into four major regions, each with a regional court, house, and president. These presidents can pick a figurehead president to represent the nation, but that one has had to previously served as a regional president, and can be removed by the regional presidents or by popular vote. Also, term and age limits, to ensure that the decisions of the officials more closely reflect the interests of the general population.
Each of the four regions can send representative judges and congressmen to a national court & senate, which only creates laws and refines them with a majority vote between the four regions. Otherwise, each of the four regions upholds their own laws in their respective territories. Judge-wise, I figure each region can send 4 to the national court, each president 1 apiece that only lasts during a president's tenure, and the figurehead president a supreme justice who can only do tiebreaking votes and writes up rulings made by the court. That is essentially 16 judges that aren't picked by presidents, with only 5 more being presidential picks that leave office when their boss leaves office. 21 in total.
I think this sort of arrangement would make it much harder for officials to be captured by interests, since each region is basically a nation unto itself. This essentially breaks up the federal government, making it harder to bully individual states.