Do you have L3 switching enabled?
Do a packet capture on your trunk port on the MX84 which is connected to the core switch. When you try to ping across the VLANs, is any traffic reaching the MX84?
As a last resort, can you assign two ports on the MX84 as access ports to different VLANs and try pinging between them?
I'm guessing there's a routing or ACL issue somewhere in your switch stack.