Hmmm. That would be quite harder for the good guys to resolve. The ticking clock with the enemy fleet approaching Sol and dealing with an entire cell would be wonderfully suspenseful. It could be taken right down to the wire.
It could also draw some interesting lines between the main characters and not like Reed being Section 31 in ENT but more ideological and serious.
It would imply a much greater plan of the last remains of the Eastern Coalition like some kind of fleet wide sabotage plot. Maybe the Eastern Coalition Terrorist don't even know they have been manipulated by the Romulans.
I like the way you think.