The team also visited Ashray and North Bengal People's Development Centre - both shelters run by the NGO, and spoke to the people who work there, a senior police officer said.
The CID officer also went through documents available at these places, the officer said.
Later the officer also interrogated Chandana Chakraborty and Sonali Mondal, the chairperson and chief adoption officer of the NGO respectively, who are in CID custody at Jalpaiguri Kotwali police Station, SP Jalpaiguri Amitava Maity said.
Led by the Jalpaiguri district president of TMCP Abhijit Sinha, the activists also burnt an effigy of BJP state president Dilip Ghosh.
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The AIWDF, (women's wing of CPI-M) also demonstrated in front of Kotwali police station on the issue.
Chandana Chakraborty and Sonali Mondal were arrested by the CID on February 18 in connection with the case.
Earlier the CID had cracked a child trafficking racket by conducting raids in North 24 Parganas, Kolkata and some other parts of the state in November last year.