When it comes to wrath of the righteous, I would say the very nature of the mythic paths (specifically the fact you turn from a mortal being with a lot of choice into a mega being that is inherently tied to an alignment) might be the reason why sometimes the game feels very restrictive when it comes to alignments.
I don't know if thats a bad thing per se, but this game does go the mass effect route of heavily encourage you choosing one Shepard over the other and could be extremely punishing for not doing so.