You can apply for a Schengen visa at the Dutch Embassy when your destination is The Netherlands, Belgium or Luxembourg.
Provisional resident permit (MVV)
If the applicant wants to stay longer than 90 days in the Netherlands in the period of 6 months, he has to apply for MVV first. During the MVV process, applicant may not apply for short term visa (1-90 days). Applicant has to wait for the decision at the home country or place where he lives. You do not have to make an appointment to submit MVV.