Possibly too late for your question now, but we were supposed to catch the CNL train from Muchich to Venice, but adB Bahn from Munich to Venice, which runs through Salzberg. DB Bahn has canceled all these trains, due to border control. We ended up catching a train through Innisberg way. Other people at the hotel we stayed at said going into Salzberg was ok by car or taxi, but coming back over the border took about 2 hours. They advised to lock your doors esp over the bridge which is a,to the border.
The reason is the refugees heard Germany would take them, but have now reduced the numbers they are allowing to enter. Munich train station was very busy with Oktoberfest patrons and refugees, and had a very big police presence.