In BS7671, Appendix 6, you will see the Schedule for inspections for new installations (in the form of tick boxes). In the Left hand column at the bottom, the heading is "additional protection" and two methods are listed - Protection by RCD and Protection by Supplementary Bonding.
In the same column half way up, the heading is "Automatic Disconnection of Supply" and there you will see Supplementary bonding listed again
Additional Protection using RCD's or Supplementary bonding is where BS7671 state you must install it (Mainly found in Part 7 - including Locations containing a bath or shower)
Supplementary bonding by Fault protection can be used where disconnection times cannot be met and it is unreasonable to use RCD protection eg Industrial machines etc
Therefore Supplementary bonding has not been taken out, it's just the application of BS7671 on how its applied