I did encounter my first Rogue Trader quest that feels actively railroaded, because in order to discern who the rebels on my ship are my apparent only option is to do an astrophysics choir ritual that numerous trusted, respectable people have warned me is deadly/dangerous/will invite in the horrors of the Warp
My Rogue Trader, an officer who values needs of many over the needs of himself and wishes to minimize risk, would listen to his advisors and find another way, but I even Googled and apparently not doing it or rejecting the ritual just, fails the quest and progression in that DLC plotline is basically halted
Like ok FINE I will do the obvious stupid thing because apparently, I am stupid
Otherwise tho the game has really phenomenal choice/impact of choice