I doubt that there is any significant problem with solicitors failing to strip out VAT for stamp duty purposes. Even if there is ( which would greatly surprise me), any suggestion that there is some sort of systemic problem with solicitors 'pocketing the difference' is certainly absolute bunk. (The amount paid is stamped right there on the deed - a solicitor who wanted to be a fraudster would certainly come up with something better than this.)
There is a minor issue which may well have resulted in overcharging of VAT in a small way; Over the years I have consistently had to correct\dispute with Revenue over the way that they calculated the VAT-exclusive price for Stamp Duty purposes. The calculation method used by at least some in Revenue was:
1. Take total price
2. Deduct Site price ( where there is a separate site contract and building agreement)
3. Deduct VAT from balance
4. Add back site price
This method had as its basis the clearly erroneous assumption that there was no VAT on the site price. The difference in Stamp Duty would be relatively modest, but I am sure there are practitioners who would - when the 'extra' payment was demanded by the Revenue Commissioners- simply stump up payment on the basis that the Revenue Commissioners could hardly be wrong. This is, as I say, a relatively minor issue - (though still worth a few hundred on some transactions) and in fairness I have not noticed the problem in the past 2-3 years ( though it occurred repeatedly for me over the previous decade - maybe one in four investor purchases).