Salaam Hassan3000,
Although your question is directed at brother Joseph I would like to share with you my humble response.
I believe, as brother Joseph alluded to in one of his articles, that the directive here was, first and foremost, to the contemporaries of the Prophet who were the direct addressees. It is they who were being instructed to submit to the judgement of the prophet.
Secondly, if the verse you've cited is read in conjunction with verse 60:12 then it becomes clear that submission to his judgement is only allowed when his judgement is shown to be fair, just and right and in-line with the book of Allah (the Quran)
This understanding is also reinforced by the directive: "and then find within themselves no discomfort from what you have judged" in the verse you cited.
Furthermore, I believe that albeit they are the same person, a distinction must be made between 'Muhammad the messenger / prophet' and 'Muhammad the man / husband / father'.
Muhammad, in his capacity as a man / husband / father, would not have (in his general judgement) been 'infallible / flawless', and made occasional mistakes / errors, as clearly noted from these Quranic verses: 9:43, 80:1-10, 66:1. These minor errors / mistakes were, however, invariably pointed out to him, and thus rectified, through divine revelation. Judgments made by Muhammad (pbuh) in his capacity as a man / husband / father must be accepted only when they are shown to be just [/b]and right and in-line with the book of Allah (the Quran).
Whereas Muhammad, in his capacity as a messenger / prophet, (entrusted to deliver the Quran) would NOT have made any mistakes / errors, as he was under divine guidance / influence (53:3-4; 69:44-48; 15:9).
Therefore, I believe the verse you cited was asking the contemporaries of the Prophet to accept (and act upon) the judgement of Muhammad (pbuh) made in his capacity as a prophet, and sense those judgments were made by Muhammad in his capacity as a messenger / prophet (which meant he was under divine influence) they must'v be right and just.
That is my humble understating. Any critique is welcomed.
Peace.