That the boundary is larger than the surface shouldn't be any issue. It would just crop/retriangulate the surface before computing the Isopach. In your case it only would have to crop it marginally.
Does it create the "Isopach" under Cut/Fill Maps in the project explorer? If yes, and if you show the properties of it, what does that one say about the volumes? If those are correct it points to an issue with the report template that came with 5.90.
There had been issues with stockpile/depression computations and if the report language was anything but English. But that was fixed in 5.80.
The just released 2023.11 notes include "The Earthworks Summary report included incorrect total volume calculations". Not sure which constellation that is referring to and to which version the fixed bug dates back.