Ekenasio, who was recalled into the national team after taking time away from the game to start a family, has suffered a finger injury in the build-up to the Taini Jamison Trophy series while Folau continues her comeback from a niggling knee complaint.
"Maia has been in the environment before and we feel confident she can make a seamless transition back into the shooting circle while Claire made her debut last year and also knows our systems well," said Southby.
"It's disappointing to have these injury setbacks we want to make sure all three are at full fitness when we head to the Gold Coast for the Commonwealth Games."
The Taini Jamison Trophy series will see the Silver Ferns take on Malawi, Jamaica and Fiji, and is their final hit-out ahead of the Commonwealth Games which start on April 4.
Silver Ferns squad: Katrina Grant (captain), Maria Folau (vice-captain), Ameliaranne Ekenasio, Temalisi Fakahokotau, Shannon Francois, Kelly Jury, Grace Kara, Claire Kersten, Bailey Mes, Te Paea Selby-Rickit, Samantha Sinclair, Michaela Sokolich-Beatson, Maia Wilson