Maybe this question is more suitable for Philsophy SE, but I want to hear mathematicians' opinions.
Suppose that we have an axiomatic system $\mathcal{A}$ with axioms $A_1, A_2, A_3,\dots,A_n,\dots$ Notice that this at least implicitly grounds natural numbers, as $n \in \mathbb{N}$ is the only reasonable option. (Or is it? I'd love a counterexample to that, if anyone was crazy enough to try — if it is even possible — to construct an axiomatic system which somehow has a number of axioms which is not $0$, a natural number or infinity!)
Notice that even if we have some axiomatic system $\mathcal{B}$ which contains no axioms, its existence grounds the number $1$ (as the system itself, uncontroversially, is one), and therefore (all?) (a) natural number(s). (I added these parentheses because I'm not sure if natural numbers can be deduced solely from the fact that $1$ is implicitly grounded.)
This, as I see it, edges on mathematical Platonism, as some things (in this case, natural numbers), truly exist in the structure of any possible mathematical or logical system, even though they haven't been defined yet! Anyway, my questions boils down to this:
1. Is my observation philsophically and mathematically sound or is there a counterexample to my claim that the number of axioms can only be infinity, $0$ or a natural number?
2. Has any mathematician acknowledged this observation in his professional work?
I think you are confusing the axiom system with language used to describe the system. In your examples the latter language implicitly requires (some) natural numbers. That says nothing about the former.
In practice, I doubt that mathematacians would find much use for a system that was too weak to allow counting.