IRCC uses IRPA to process applications. This is ensure decisions on the applications do not become subjective but rather objective. There’s no rule that says one cannot remove the spouse from PR visa to return the points lost due to the spouse accompanying. So, IRCC cannot reject your application based on this. There were some cases where when the applicants are already in Canada that this reason was not accepted because it didn’t make sense as the spouse was already in Canada with a temporary visa. However, I did see a case where the primary applicant lawyered-up and challenged the decision. IRCC settled the case outside the court by agreeing with the applicant to reopen the application and he/she dropped the case. So, yeah, in the rare cases where this becomes an issue, the law is on our side.
Almost all the immigration agents aren’t lawyers so they make recommendations based on anecdotes. If you have no other option, go for it.
Since I already passed the eligibility, it means they accepted my reason because if they questioned or insisted that I make spouse accompanying I would have lost many points and fall below the cut off score, hence I would have failed eligibility.
After I got the ITA, there were questions to be answered in order to proceed to the documents page and in that they asked the reason.