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There is no difference in the topology of Minkowski space and Euclidean space, they are homeomorphic. The difference is geometrical, not topological. I agree with the rest. The main difference between Minkowski space and Euclidean space is the inner product. Among other things, the inner product on Minkowski space results in a Pythagorean theorem that is similar to, but yet very different from, the one we are used to from Euclidean space, namelyjbriggs444 said:The difference is in the topology.
$$
ds^2 = c^2 dt^2 - dx^2 - dy^2 - dz^2.
$$
With ##s = c\tau## and ##\tau## being proper time along a world-line, computing the proper time along a curve is completely analogous to computing the length of a curve in Euclidean space - the only difference being in the different Pythagorean theorem.
As to why Nature is better described by Minkowski geometry than by Euclidean geometry, it is just how Nature seems to work.