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You should enter the Schengen area and get an entry stamp in Munich. I never had the occasion to connect in Munich but Schengen flights typically depart from another area in the airport and are not subject to any systematic passport checks on arrival, hence the need for a border check in the first airport in the Schengen area. That's also why “transit ...
You are transferring from a flight from a non-Schengen location to a flight to a non-Schengen location. Your passport will be checked, so you need to have it and a valid visa if necessary. You may need to have a copy of the documents that you needed to obtain the visa, such as your ticket or boarding pass for your onward flight (proof of onward travel). ...
Munich airport allows International to International transfers without having to pass through passport control. There are however a small number of countries that may require a visa to pass through the airport, even if you are not going through passport control - and that includes Turkish citizens.
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