OK a couple of things first of all:
1.If Adam's blood is healing, then maybe Claire's is. If so, then why during the Homecoming event when they tested her blood to confirm it was hers (Matt said during Company Man they found her blood all over the crime scene) then how did the police not notice anything odd about it?
2.Adam said that he was locked up because they could not kill him - what about destroying the brain, as Chandra said everything is controlled there.
3. Why are the Irish boyos expecting I-Pods if Peter is coincidentally locked in that container? Is it a setup and he was supposed to be found by Ricky and his mates.
4. If Angela is founder of the company, would Bob not tell her that they have found her son, or is she not involved any more?
5. So DL found Nicky in all of LA in less than a week? And where was Micah at the time?
6. Where was Matt during these 4 months, bearing in mind he got shot in the chest four times?