I would think its because the mods werent made for Afterbirth. Try uninstalling the mods and then wait for them to be updated for Afterbirth

I have been having a problem. This seems to be the problem for a lot of the games that i try to mod without the use of the community hub. For some reason putting it in resorces like the instructions say does nothing for me. Is there a reason for this? Is there some sort of skip i missed? (Note: I did unzip the files so that is not the problem.)