Person A believes they work.
Person A says "we shouldn't use this on Persons B, C, D".
Pretty major implications about the integrity and suitability of Persons B, C, and D, and about how Person A suspects they have stuff to hide.
(In some ways this is a good reason to keep them around. Even if some people know they're crap, the existence and popular mythology causes people to reveal more than they otherwise would through actions like this.)
It’s certainly suspicious. But it’s also a huge problem they use them at all when the private sector was banned from doing so since they’re so unreliable decades ago.
I'd be quite comfortable if I knew that these polygraph tests were being scrapped entirely because they're nonsense and that the FBI is reworking its security procedures to improve all its background checks. As it is, these articles make it sound like they're replacing the polygraph test with nothing, and only for these select few people. I don't like that. It is a human-led interrogation, albeit with a useless (at best) machine. I want to know what's so trustworthy about these people that the FBI doesn't even want to get to know them before giving them jobs high up?
That's something that companies do all the time, they pay people "out of band" or give them extra benefits or accelerate their vacation accrual or vesting, or one of hundreds of other things.
I agree it looks bad for sure but it isn't necessarily sinister.
While it would never be allowed for the average Federal employee it does exist outside of purely political positions.