I suppose by $a\leq_Hb$, you mean that $a$ is $\Delta^1_1(\{b\})$. And I suppose in the question, $A=X$. Under this interpretation, the answer is no; in fact, there is a $\Delta^1_1$ set $X$ for which the property fails.
Let $X$ be the set of all reals which are the (first order) theory $T$ of a countable structure $M$ for the language of set theory which has wellfounded $\omega$ and satisfies
"$V=L$" + KP + "There is no ordinal $\alpha$ such that $L_\alpha$ models KP". Then $X$ is $\Delta^1_1$ and non-empty, so it suffices to see that there is no $T_0\in X$ which is $\Delta^1_1$-minimal for $X$.
So suppose otherwise, and fix such a $T_0$.
Note that if $T\in X$ then there is a unique-up-to-isomorphism pointwise definable model $M$ of $T$.
Let $M_0$ be some pointwise definable model of $T_0$, with transitive $\omega+1$.
Let $Y$ be the set of all $T\in X$ such that, letting $M$ be as above for $T$, there is also a model $N$
which models "$V=L$" + KP and there is $\alpha\in\mathrm{Ord}^N$ such that $M\cong L_\alpha^N$.
Claim: For each $T\in Y$, letting $M$ be a pointwise definable model of $T$ with transitive $\omega+1$, we have $\mathbb{R}\cap M\subseteq \mathbb{R}\cap M_0$.
Proof of Claim: Let $T\in Y$, as witnessed by $T,M,N,\alpha$. Since $Y\subseteq X$, we have $T_0\in\Delta^1_1(\{T\})$,
and we have $T=\mathrm{Th}^M(\emptyset)$,
so $T\in N$, and because $N$ models KP and has wellfounded $\omega$,
it easily follows that $T_0\in N$.
Let $M_0'\in N$ be a pointwise definable model of $T_0$
with wellfounded $\omega$;
so $M_0'\cong M_0$, and $\mathbb{R}\cap M_0'=\mathbb{R}\cap M_0$.
Then because $N$ models KP and there is no $\beta\in\mathrm{Ord}^N$ such that $N\models$"$\beta<\alpha$" and $L_\beta^M=L_\beta^N\models$ KP,
note that $N$ has an isomorphism between $\alpha$ and either $\mathrm{Ord}^{M_0'}$ or some proper cut of $\mathrm{Ord}^{M_0'}$.
It follows that $\mathbb{R}\cap M\subseteq M_0'$,
proving the claim.
Let $A$ be the set of reals $x$
such that there is some $T\in Y$ and pointwise definable model $M$ of $T$ with $x\in M$. Note that $A$ is $\Sigma^1_1$ and $A\not\subseteq L_{\omega_1^{\mathrm{ck}}}$.
So there is a perfect set $P\subseteq A$.
But we have seen that $A\subseteq M_0$,
and $M_0$ is countable, a contradiction.
Remark: If $X$ is thin and $\Pi^1_1$ and non-empty, then there is in fact a $\Delta^1_1$-minimal element of $X$, because then $X$ is a subset of all reals which are $\Delta^1_1$-equivalent to a master code of $L$ (that is, $\Delta^1_1$-equivalent to a theory $T$ of some $L_\alpha$ such that $L_\alpha$ projects to $\omega$ (where $\alpha$ is a true ordinal)). Thus, just take the least $\alpha$ such that $L_\alpha$ projects to $\omega$ and there is $x\in X$ with $x\equiv_{\Delta^1_1}T$ where $T=\mathrm{Th}^{L_\alpha}(\emptyset)$. Then $x\in\Delta^1_1(\{y\})$ for all $y\in X$.