No, there won't be any issues in the future, your spouse will be able to add you to her EE application or sponsor you later through Family Sponsorship class.
However, that fact that you're exempt from the travel ban doesn't mean that you're exempt from the right to ask for COPR extension. Just raise the webform saying that you cannot or unwilling to travel due to COVID-19 outbreak. In the worst case, IRCC won't extend your COPR, however, it is highly likely that you will be granted with extension.