Even if you set up the D/D on time, albeit close to the deadline, then filed your VAT return via MTD on time, in some cases the information is not pulling through correctly at HMRC's end so then the D/D is not being claimed by them.
They have advised that the client should NOT make a manual payment, but call for the issue to be escalated to their technical team for investigation. They expect the D/D will then be processed within the next few days and an update will be shown via the clients Business Tax Account (assuming they have one of course!). They have my contact number in case of further issues.
HMRC confirmed no surcharge and are relying on the 700/22 - no penalty clause for the soft landing period because they 'expect problems with people's first MTD returns!'
The information re this issue has only been circulated internally within HMRC for call handlers - it has not been passed to developers/added to any service issue pages!
Bit lat for some perhaps, given the timescales, but though I would share anyway.
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Joanne
Winner of Bookkeeper of the Year 2015, 2016 & 2017
Thoughts are my own/not to be regarded as official advice,which should be sought from a suitably qualified Accountant.
You should check out answers with reference to the legal position