The definition of an intersection of family($F$) is:
$$\cap F=\bigl\{x\mid\forall A(A\in F \implies x\in A)\bigr\} $$
If my understanding serves me correctly this notation means that all the $x$ that pass the elementhood test are in the set. So $\forall A(A\in F \implies x\in A)$ must be either true or false for each different $x$. Assume $x\in A$ and $A\notin F$, doesn't that mean that $x$ is in $\cap F$(including any element $x\in A$ for any $A\notin F$) ? So any $x$ can be in $\cap F$ if $A\notin F$ since $\forall A(A\in F \implies x\in A)$ will be true if $A\notin F$.
This case is similar to $A=\{z|\forall n (n\in N\implies z=n)\}$($N$ is the set of natural numbers), if $n\notin N $ then the set $A$ can contain any value in the real system since $\forall n (n\in N\implies z=n)$ will be true if $n\notin N$.
If there is some $A\notin F$, then we know nothing about whether $x\in A$ or not.
When the antecedent of an implication is false, we know the entire implication, as a whole, is true; but we no nothing about the truth value of its conclusion $(\text{e.g., whether }x \in A)$.