Let $N(r)$ be the number of $r$-balls needed to cover $E$. Then the lower Minkowski dimension of $E$ is $\liminf_{r \to 0} \log N(r)/\log(1/r)$. I claim that your assumptions imply that the lower Minkowski dimension is at most $n - 1$.
In fact, by taking $\varepsilon \leq 1$ arbitrarily small (and noticing that $r_\varepsilon \to 0$ as $\varepsilon \to 0$), it follows from your assumption that there exist arbitrarily small $r$ such that one can cover $E$ by a set of $r^{1 - n}$ $r$-balls. That is, there exist arbitrarily small $r$ such that $N(r) \leq r^{1 - n}$, which is of course equivalent to $$\liminf_{r \to 0}\frac{\log N(r)}{\log(1/r)} \leq n - 1,$$ as claimed.
(In my previous revision, I got a quantifier backwards, and incorrectly convinced myself that the upper Minkowski dimension of $E$, $\limsup_{r \to 0} \log N(r)/\log(1/r)$, is $\leq n - 1$. This would show that the packing dimension is $\leq n - 1$ as well. I am sorry for the confusion. No idea why it is claimed that the packing dimension is $0$ would come from, because it seems to be violated even by the simple example of a line segment in $\mathbb R^3$.)
Minkowski dimension is badly behaved under countable unions, unlike Hausdorff dimension. In view of this, the classic example of a compact set whose Hausdorff and Minkowski dimensions disagree is $\{1, 1/2, 1/3, \dots, 0\}$, whose Minkowski dimension is $1/2$ and whose Hausdorff dimension is $0$. This is Example 1.1.4 of Bishop and Peres' book on fractals, so let me not copy down the whole calculation here; the point is that if you want to cover $\{1, 1/2, \dots, 1/n\}$ by intervals of length $\lesssim n^{-2}$, then you need each interval to only cover a single point and therefore you need $n$ intervals.
In view of this, a counterexample to your claim is $E = \{1, 1/2, 1/3, \dots, 0\} \times C$ where $C$ is a Cantor set in $[0, 1]$ of Hausdorff dimension $\delta > 1/2$. The Hausdorff dimension of $E$ is $\delta < 1$ but the Minkowski dimension is $1/2 + \delta > 1$.
PREVIOUS REVISION: If I'm reading your assumptions correctly, any compact set $E$ whose Hausdorff dimension is less than $n - 1$ but whose packing dimension is greater than $n - 1$ would be a counterexample. But I could be misinterpreting a quantifier.