One way to understand the axioms of $\mathsf{ZFC}$ is to see them as a describing the "universe of sets" $V$, together with the "true membership relation" $\in$. The universe $V$ is built up in stages: \begin{align} V_0 &= \varnothing \\[4pt] V_{\beta+1} &= \mathcal P(V_{\beta})\quad\text{for every ordinal $\beta$,}\\[4pt] V_{\lambda}&=\bigcup_{\beta<\lambda} V_{\beta}\quad\text{for every limit ordinal $\lambda$.} \end{align} with $V$ defined as $\bigcup_{\alpha} V_{\alpha}$.
Although the "universe of sets" as described above is often said to be the intended model of $\mathsf{ZFC}$, this appears to be philosophically contentious. For instance, to make sense of the description of $V$, we need to have a pre-axiomatic understanding of many seemingly non-trivial concepts, such as ordinals.
In addition to this, my understanding is that a model of set theory is typically defined as a pair $(M,\varepsilon)$, where $M$ is a set and $\varepsilon$ is a binary relation on $M$ such that all of the axioms of $\mathsf{ZFC}$ are true when interpreted in $(M,\varepsilon)$. The relation $\varepsilon$ need not be the "true membership relation" $\in$ described earlier, and it appears that in this situation, we study models of set theory in a way that is analogous to how we study models of group theory (i.e. groups). Like most areas of mathematics, model theory seems to take the notion of what a set is for granted.
Since $V$ is "too large" to be a set, it seems that the pair $(V,\in)$ cannot be a model of $\mathsf{ZFC}$ in the formal sense described above. However, even from an informal perspective, the description of $V$ seems unsatisfactory to me: for instance, it seems unclear whether the continuum hypothesis holds in $(V,\in)$, which suggests that the idea of building the universe of sets up in stages is murkier than one might hope.
So, my question is: given the objections raised above, what philosophical positions are commonly held by set-theorists about the "universe of sets"? Where possible, I would be interested in seeing references to the literature.