hi, im running old version 3.6 in virtual mikrotik x86 with more than 800 routers and it works fine. New versions not stable and have more bugs. To Bossman you can contact me at firstname.lastname@example.org, we can make some deal.
And try do what i write, but only do masterport2 other slaves and in bridge leave only ether2, hotspot leave on bridge interface. When not work, try add IP addreses of APs to IP BINDING rules and set baypass.