Click on the bee hive. What does it say? If it doesn't say one of the following; the bees are happy, need more room, bees are sleeping, or drops honey than you got problems. I think mods are stuffing something up as your screen shot does not look vanilla as the prompt displayed is not a normal prompt .

They might need to be in more open spaces as the trees might be providing cover which might stop them producing honey. I'm just guessing since you haven't advised what it says when you press e on the hives