The testing I did suggested this wasn’t happening. So, I wrote up a bug report with details of the errors and effect and sent it to Microsoft. This has now been written up as a bug for the development team to look into.
Nice to know that a fix is being looked into, it’s just a shame that it’s going to be a little which before this feature will be available; EFT payments is how 95%+ of supplier payments are made by my clients.
Update: This bug was fixed in the July 2018 Mid year tax Update.