Hello,
I had the same issue and found another work around rather than reverting to the previous version.

The topic is discussed here:
https://bugs.launchpad.net/ubuntu/+source/bluez/+bug/2045931

It seems that this is intentional will not be changed in future versions.
As mentionned right at the beginning of that post the workaround is the following:

Set ClassicBondedOnly=false in /etc/bluetooth/input.conf Run: systemctl restart bluetooth # or reboot

It worked for me.
Maybe its worth digging a little bit more to know what is the more suitable way of handling this new way of working of BlueZ...

Hello! First, thanks @psyke83 for the great work on the ps3/ps4 controllers support in RetroPie.

What is the current status of the driver/procedure for latest RetroPie 4.4 on Debian Stretch to use ps3/ps4 controllers? Are the instructions in https://github.com/RetroPie/RetroPie-Setup/wiki/PS3-Controller still the preferred method at the moment to use these controllers?

Thanks!