A related issue, IMO, is that when you take over a SIM team that has recruited players in the first session, those recruits are assigned to you. You can't cut them without penalty, and you don't get resources for them. I've also noticed that when a team loses a human coach and is taken over by sim, the sim doesn't lose the consideration - only if the team is picked up by a new coach. I sent in a ticket about the first, and was told it was a known glitch they're working on.
I think the issues are related in that they have to do with how multi-user recruiting effort on the same guy are treated. I agree that the situation where you lose all previous effort AND are blocked from further effort is a glitch. On its own, it seems like this is inviting collusion. "You're leaving after the season? How about you do me a favor, and fight me for this elite recruit before you go. Spend all your cash, do all your visits. It will scare everyone away, and when you leave, I'll get him without a fight." I seem to remember this being an acknowledged issue at the end of beta, something that would have to be ironed out. And it could be that it is just taking a lot of testing, and maybe will be part of the promised hiring/firing logic fix.
Until then, send tickets, and manage expectations. As it stands, the first season taking over a new team that was human controlled last season is likely to be terrible. You can't expect anything other than gap filler recruits in that interim season. Anything more than that is icing.