We are given a chain complex: $ \ldots \to C_n \stackrel{\partial_n}{\to} \ldots \to C_1 \stackrel{\partial_1}{\to} C_0 \stackrel{\partial_0}{\to} \ldots$ where $C_0 = C_1 = A$, $\partial_0$ is the zero map and $\partial_1$ is multiplication by $n$. Also $C_n = 0$ for $n \neq 0,1$.
Since $C_n = 0$ for $n \neq 0,1$, we must have $\mathrm{Ker}\partial_n = 0$ for $n \neq 0,1$ (because $\mathrm{Ker}\partial_n\leq C_n = 0$). So $H_n = 0$ for $n \neq 0,1$.
Next observe that, because $C_2 = 0$, we must have $\mathrm{Im}\partial_2 = 0$. So $H_1 = \mathrm{Ker}\partial_1/\mathrm{Im}\partial_2 \cong \mathrm{Ker}\partial_1 = \{a \in A | na = 0\}$.
Finally, $H_0 = \mathrm{Ker}\partial_0/\mathrm{Im}\partial_1$. Since $\partial_0: A \to A$ is the zero map, $\mathrm{Ker}\partial_0 = A$. Also since $\partial_1: A \to A$ is multiplication by $n$, $\mathrm{Im}\partial_1 = nA$. So $H_0 = A/nA$.
We conclude that for the given Chain complex:
$H_0 = A/nA$, $H_1 = \{a \in A | na =0\}$ and $H_n = 0$ otherwise.
The issue you are describing (with $\mathbb{Z}/4\mathbb{Z}$, and $n=3$) is not really a problem. The above calculation is for an arbitrary abelian group $A$ and integer $n$. You should think of the final answer as a formula of sorts: once you input a choice of abelian group $A$ and integer $n$, you are able to quickly determine the homology without having to go through the lengthy argument every time. However, just as is the case with functions, if you change your input (in this case the pair $(A,n)$) then the value of the function (in this case the Homology of the Chain complex) will also change.