I think each authority within EASA does it differently. I cannot say for sure which ones charge and which ones dont. In fact, they dont all seem to agree on whether you need a separate SP and MP type rating in your licence, or whether the type rating is just for the type, and the details of SP/MP operational qualifications are recorded differently.
In fact, within the same country, you will often find that the same thing is recorded differently on the licences of 2 different pilots! The authorities are always 2 steps behind with helicopter stuff compared to the airline stuff which is their bread & butter. The next massive headache just revealing itself is how to record PBN qualifications. I dont think any 2 authorities will end up doing it the same!