I used an Intel and it indicated that I would receive 7 Hereticus reputation if I completed the mission. I did so but I did not receive the reputation reward. My rep is still what it was at after I completed one weekly Ordo mission for the Hereticus.
Just wanted to bring this to your attention. Really loving those Ordo Seals though! Look forward to scoring some nice relics.
EDIT: I just did another intel with a 7 reputation reward for Ordo Xenos. I completed the mission and received 3 rep.