In light of the resurgence of the virus, this would be exactly the wrong time for the justices to extend preferential treatment to religious groups by allowing them to ignore bans on large gatherings.
One of the problems with government-backed prayer resolutions is that they assume a certain level of religiosity is common among all Americans, that 'real' Americans naturally embrace faith during trying times.
While there are some exceptions, most courts are taking the reasonable route and upholding neutral bans on large gatherings, religious and secular, during this difficult time.