This could end up being a pretty nasty situation. As we've already seen, Omni obviously wants control of these people, since a secure Grid feed was refused. However, the Council cannot flat out deny Omni's request, or Omni-Pol will come into Tir and take who they're after.
The Council needs to make an effort to meet Omni-Pol's request, else the resistance that will result when Omni-Pol comes into Tir will not be completely justified.
My solution is to require Omni-Pol to open it's investigation to the Council of Truth as well as allow CoT delegates to accompany the wanted individuals to Omni HQ in order to monitor their treatment and questioning. There is no reason Omni should deny this request, as it would certainly avert an obvious confrontation.