My daughter wants to pick a puppy up in Munich and then take the train to Amsterdam. Only question is will the trains allow a puppy in a crate on board?
Yes, as long as they sit in the pet section.
What Pet Section? I've never seen one on the Thalys or the TGV.
Pet section, as in the part of the train where pets are allowed. They differ from train to train and I'm not familiar with DB's rules. But since the OP's daughter is travelling from Germany, how TGVs and Thalys works are not really relevant.
Serious warning to take care about EU regulations to transport animals (esp. not your owns) across borders (even inner Schengen).
irrelevant possibly but I have vivid memories back in my early days working on the railway when at a rural station I had a Shetland Pony board. Back in the day we used to take all sorts of things...
München to Amsterdam can be done on ICE trains. Dogs are allowed on ICE trains and there is no such things as a special pet section. The only place on the train where “normal” dogs aren’t allowed is the bar coach. Guide dogs and assistance dog however are allowed everywhere on the train.
See here for all details; https://support-en.nsinternational.com/app/answers/detail/a_id/14922/~/ice-»-travelling-with-a-pet#
Some trains theoretically require muzzles. But mostly this regulation is ignored. If the dog is well behaved, you're fine. Depending on the age of the pup, the bigger question would be how it is going to relieve itself.
However, dogs DO need tickets if they are not in a carryon sized crate or bag. The ticket is usually 50% price.
Our dogs are experienced train travelers, though primarily HVV (metro) and only a few regional trains.