You can ask the same question about arithmetical theories, and the answer may be illuminating.
For most arithmetical examples, when we can establish provability non-constructively, we can also establish it constructively within a few years.
See Jeremy Avigad's 1998 talk on Semantic Methods in Proof Theory. That has examples like:
Theorem. $B\Sigma_{k+1}$ is $\Pi_{k+2}$-conservative over $I\Sigma_k$. Original proofs by Paris and Friedman (independently) were semantic. Sieg offered the first proof-theoretic proof.
He surveys semantic methods for establishing provability, and in every case he mentions a syntactic method to the same end.
The one contrary example I see in his talk is the Paris-Harrington statement, whose unprovability in PA is established only semantically.
So for arithmetical theories, it is rare and usually temporary for theorems to be shown provable only in a non-constructive metatheory. I don't have good data on whether the same pattern holds for geometric theories with topos-theoretic metatheories; perhaps others do, or perhaps it remains to be seen.