Here is the article I used to get the 1031 exchange entered in Proseries and record one sale in exchange for two new properties. Ultimately I ended up with four new assets for the two properties. You will have two assets for the excess basis allocated to the new properties and two separate assets for the new properties.

https://proconnect.intuit.com/community/individual/help/1040-completing-a-like-kind-exchange-of-busi....

The guidance provided above plus all of the comments here really helped.