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who would win? it would be a funny match to watch.

Matrix 3 neo (strongest version)versus super saiyen 1 goku (from freeza saga/one of weakest versions)

Even in the matrix, neo is an anomaly, he is not the one anomaly.
There are characters that can beat him.
Goku would still have his skill and his will(the base of the ability to do superhuman feats in the matrix).
You can do only as much as you absolutely without a doubt know you can do(in the matrix).
Goku would still be just as powerful and neo would get beat to a bloodly pulp again.

Oh and it wuldn't be funny, it would be a massacre.

Stick to comics please. That means no DBZ. We have other forms that are better suited to that.