Possibly, but it does make sense here. There are alien races out there who have no particular faith in the Emperor and don't follow the laws of the Imperium, but their not corrupted either.
But corruption isn't about your reputation. It's supposed to be an intrinsic psychological/metaphysical aspect of your character. It's not how others perceive you, it's how you actually are. You might have a completely unblemished reputation, while being rotten to core.What? Allying with Xenos is definitely against the Law, and most certainly is a social moor.Have some corruptionLose some reputation. Whatever you want to call it, the system still needs to be there.
Yes! Yes! This! Exactly! More to the point, if an SM division were obliged to operate in isolation from the larger chain of command for an extended period, they might be obliged to assume diplomatic/admin duties for which they have little training, which also raises some interesting quandaries.
Also, part of the point I'm making is that Faith/Corruption isn't about good/evil, it's solely about order(obedience/stasis/group) vs. chaos(change/individual/freedom). You can take orderly actions that are arguably evil, and chaotic actions that are arguably good... even if does make you sprout a third arm.
I don't think there inherently needs to be a particular scale or rating for these things, because the consequence of these choices is already encapsulated in... well... their consequences. If you, for example, decide to team up an Eldar farseer against a Tyranid splinter fleet, the benefit is that you're more likely to dispatch the 'nids. The downside is they might, afterwards, turn on you if your casualties are too great.
The only need I see for an explicit guage on the order/chaos scale is because it has specific metaphysical effects within the setting, with mutations and madness and wotnot.
However, what I might suggest is that Faith and Corruption be rated separately, rather than intrinsically summing to a fixed total. So, for example, disobeying an order would reduce your Faith, but wouldn't intrinsically raise your Corruption. Conversely, some actions (like gunning down defenceless civilians 'by the book') might increase your personal faith, but inflicting collateral damage on a civilian populace is a great way to make chaos cults more popular, so it also boosts your corruption.