I'm not sure I understand what you mean by "manage their skills" I did erase leading zeros and even tried no spaces for the actor ID's and I can still only have one pet.
For the Pets the IDs are 9 and 10 but if I have 10 join before 9 whenever I summon 9 I summon 10 regardless of the skill saying <Summon: 9>. Unless I've misunderstood and would need to build up the framework for multiple pets to exist on the team as summonable members, this should not be the case and should instead be summoning them by the ID's of their Actor designation?