The Black Book in which the Raven Guard are first given rules in 30k features a notable campaign, the aftermath of which the Imperial administration went to effort to hide from Corax, knowing that he wouldn't approve of what they did.
It's not an element GW's ever expanded on - but I think it only makes sense, given what we know of Corax's formative years, that he had to either willfully turn away from the Imperium's sins, or be maneuvered away from them.
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