$\DeclareMathOperator\Hom{Hom}$The answer seems to be positive.
Let $\psi_i: X_i \rightarrow Y_i$. Consider the directed system of exact sequences
$$ 0 \longrightarrow K_i \longrightarrow X_i\otimes- \xrightarrow{\psi_i \otimes -} Y_i \otimes -$$
in the functor category. Its direct limit equals an exact sequence
$$ 0 \longrightarrow K \longrightarrow X\otimes- \xrightarrow{\psi \otimes -} Y \otimes -$$
since direct limits are exact and tensors commute with them. Now $M$ is pure-injective, so the functor $M\otimes-$ is injective and there exists an inverse system of short exact sequences
$$ \Hom(Y_i\otimes-,M\otimes-) \xrightarrow{\Hom(\psi _i \otimes - , M\otimes -)} \Hom(X_i\otimes-, M\otimes-)\longrightarrow \Hom(K_i, M \otimes-)\longrightarrow 0. $$
The natural isomorphism $\Hom(\psi _i \otimes - , M\otimes -)\cong \Hom(\psi_i, M)$ implies $\Hom(K_i, M \otimes-) = 0$. Because $\Hom(-,-)$ turns direct limits in the first argument into inverse limits, taking the inverse limit of the inverse system yields
$$ \Hom(Y\otimes-,M\otimes-) \xrightarrow{\Hom(\psi \otimes - , M\otimes -)} \Hom(X\otimes-, M\otimes-)\longrightarrow \Hom(K, M \otimes-) = 0.$$
Hence $\Hom(\psi, M)\cong \Hom(\psi \otimes - , M\otimes -) $ is surjective.