I have a return flight to India from Madrid, with a two-day layover in Amsterdam. I have got a single-entry visa. So when I leave Madrid, they will do the immigration checks and they might stamp on the passport that this tourist has departed from Schengen. However I need to get out of the airport in Amsterdam to travel. Can I do that with a single-entry visa?

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    Why do you think you will have exit immigration in Madrid before flying to Amsterdam? – phoog Aug 14 at 1:03

If you have a flight from Madrid to Amsterdam, there's no way you will get an exit stamp. This means you will still be in Schengen when arriving to Amsterdam, and can go out as you please. You will only leave Schengen when boarding for India.

Exit checks will be done in Amsterdam. Your Madrid-Amsterdam flight will be a domestic flight and you will not pass through immigration. You don't need a transit visa for that flight.

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    Keep in mind, this means that your visa has to be valid through the date that you will depart from Amsterdam. – Nate Eldredge Aug 13 at 14:23
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    Your "No" is confusing. I guess it's directed at the claim that the passport might be stamped when leaving Madrid? It's easy to (mis?)interpret it as an answer to one of the two literal questions in the OP. – David Richerby Aug 13 at 14:49
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    A flight from Madrid to Amsterdam is not domestic. Spain and the Netherlands are two different countries, even if they both are part of the Schengen zone and there are no immigration checkpoints when travelling between the countries. – Tor-Einar Jarnbjo Aug 13 at 15:57
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    @Tor-EinarJarnbjo But it behaves exactly like a domestic flight. As such, most people seem to be referring to an intra-Schengen flight as "domestic" - and so the language changes. – Martin Bonner Aug 14 at 9:33
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    @Tor-EinarJarnbjo For intra-EU travel that's much more theory than practice. Per international agreement travellers shouldn't ordinarily expect customs checks, ditto for Schengen and identity. – origimbo Aug 14 at 11:10

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