The DS4 changes came with 4.10, I guess the DS3/sixaxis changes came later. However, there is no way but forward. If you want it working, find out what needs to be done and create a PR.
Ok so I had some time to update again to see what was going on.
Looks like every button assignment joystick and d-pad system wide has been changed in the bluez update.
Each controller is still detected as 2 controllers, normal plus the sixaxis motion, but they are working now.
Kinda silly all the functions aren't all incorporated cause in dolphin the extra motion controls would be cool.
For now i may just stay on the old build.
Cheers