How are they supposed to guess ahead of time what kind of manufactured controversy the right wing media is going to come up with next? Do you want every single government employee in the country checking in with the President to make sure they've dotted all their i's and crossed all their t's? "Excuse me Mr. President, just wanted to ring you up and make sure I'm doing my job properly".
Um, no. Government workers report to their managers, who report to their managers, etc. up the food chain. Nobody in that pyramid bothers any higher-ups with something they believe they can figure out for themselves, particularly if figuring it out is their job.