What the teacher means is this:
The question asks for the probability that "$1$ of the boxes contains exactly $3$ balls". This question clearly does not distinguish the boxes or the balls.
OK, so what if you do distinguish the boxes and the balls? Well, then you could compute the probability that, say, balls $2,5$, and $7$ end up in box $2$. OK, but obviously this is only one way to get $3$ balls in one of the boxes, so you have to compute it for all combinations of balls and boxes.
Now, that seems more work, but in fact could make things easier: by symmetry, for whatever combination of balls and boxes you have, the probability is the same as for any other combination. Hence, you only have to multiple it by the number of combinations. And once, you do that, you get the probability for getting any $3$ indistinguishable balls in one of the indistingsuihed boxes. Thus, in effect, thinking about this problem in terms of distinguished balls and boxes breaks down the problem for indistinguishable balls and boxes, and can thus make it more easy to solve.
Added Note:
It is clear that the probability of getting balls $2,5$, and $7$ ending up in box $2$ is smaller than the probability of exactly any $3$ balls ending up in one of the boxes. So it is not that the teacher meant that these probabilities are the same, if that is maybe what you thought the teacher meant. No, again, the teacher meant that computing the indistinguishable case is sometimes easier when done via the distinguishable case.