@Rowan-Dempster, i looked through the changelog of our project (https://gitlab.com/voxl-public/voxl-sdk/third-party/voxl-eigen3/) and it does not look that there are any changes done to eigen3 itself, i think it is just a package we inherited from VOXL1, which did not use apt.
If you are willing to try it, remove voxl-eigen3 package (which may temporarily break something - note which packages require it). We could potentially update whatever gets broken to be happy with either voxl-eigen3 or eigen3 installed using apt.