Yes these situations often unfold as follows:
1. Government : "Our football association seems to be corrupt, let's do something about it"
2. FA: "How dare you try to stop us being corrupt. We're going to tell FIFA on you"
3. FIFA : "The country is now suspended from all international competitions"
4. Government : "Oh. [after a few days] Hey, maybe that will make us unpopular. Quick, press Ctrl-Z"
[wait 2 years then return to step 1]
Brunei was somewhat anomalous in the sense that they weren't too bothered about not being involved in any competitions.