The WZCS is an organisation. The WZCS is an organisation that produced a document. The author of this quotation thinks that the document has flaws, mistakes, wrong things. The author of this quotation thinks that the document has at least two flaws, mistakes, wrong things. The author of this quotation thinks that the document has at least two flaws, mistakes, in reasoning, logic, thinking. “The second flaw in the reasoning of the WZCS document is <decribed in what follows>. [The second flaw in the reasoning of the WZCS document] is the faith that it assumes. Look up faith. It is trust that someone or something will do something. This faith is described as naive faith. "naive": is an adjective modifying "faith". Look up "naive": it means that the person writing thinks this faith woiuld not be there if the organisation found out more. On verb for having faith is "place". The document places faith in [something] = has faith in something. Faith, ok in what, that who would do what? [The second flaw in the reasoning of the WZCS document is the naive faith it places in its 1,000 core zoos. “ “The second flaw in the reasoning of the WZCS document] is [the naive faith it places] in [what?] “The second flaw in the reasoning of the WZCS document] is [the naive faith it places] in its 1,000 core zoos. “ So the organisation, or the document, "has" 1,000 core zoos. zoos = zoological gardens = places which save & feature animals. core = main, or central, usually substantial [The second flaw in the reasoning of the WZCS document] is [the naive faith it places] in [its 1,000 core zoos. ] . Any better?

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Basically it means the second mistake in the reasoning of the WZCS document is that it unrealistically places a lot of importance and value on 1000 zoos.

= The second mistake in the (logic of the) WZCS document is that the writers believe the 1,000 most important zoos are capable of having some kind of positive influence on the preservation of species in danger. (The zoos' record of species protection is not good.)