I didn't neglect it. Firstly, it's actually mentioned as a possibility in the scans. Secondly, in the same scans Loeb actually goes out of his way to point out that out of all the villains there, Shiva might not be mind-controlled.
Thus I could declare that he beat the non-mind-controlled Shiva with the same certainty than you declare that he beat the mind-controlled Shiva.