The first issue is whether you have to file 1099-NEC at all
the criteria can be found in this link
https://taxmodern.com/articles/1099-nec-forms-for-my-rental-property#:~:text=You%20have%20to%20file%...
if you do and assuming the properties are owned personally rather than by a partnership, or corporation
in my opinion (could not find anything from the iRS one way or another about separate or joint 1099 when MFS) you each issue a 1099-NEC for the payments you're deducting on your schedules C/E for the total of all payments for all properties.
