Emo Techmarines? :tu: :lol:
Don't see anything that wrong with it. I'm not sure that there'd be a major theological struggle with Techmarines worshipping the Omnissiah. Marines don't really hold to the pretext that the Emperor is a God, and it's the struggle between Emperor and Omnissiah that would cause the most anguish. It'd mainlu conflict with the personality Cult of their Primarch, which the Chaplains wouldn't be happy about for sure. But re-reading your IA, I see that they're a Monodominant Chapter, so I suppose they see the Emperor as more than just a Man. It'd be interesting to expand upon it futher, maybe introduce some named characters that highlight and define the internal struggles in the Chapter. Like, maybe, a particular Chaplain assigned to the Scouts who perhaps goes a little too far in their indocronation against False Gods, and lets slip with something about the Omnissiah.
Just an idea. It's great to see this quality of IA back in the Liber.