This is something carrying over from FM22, where if the same team wins the Primera División and the Torneo Intermedio, then the game schedules the Supercopa for the next season between the league winner and the league runner up, instead of it being the league winner and the runner up of the Torneo Intermedio.
http://www.tenfield.com.uy/aprobado-a-partir-de-2017-el-uruguayo-ira-desde-enero-a-diciembre-crearon-torneo-intermedio-y-la-supercopa/
The final line makes it clear that if the Uruguayan champions are the same as the Intermedio champions then the supercup will be between the league champions and Intermedio runners-up.
That is what will happen this coming year irl as well, although this isn't the best example since Liverpool are the runners-up in the league and the Intermedio. https://www.elobservador.com.uy/nota/supercopa-uruguaya-cuando-donde-y-quienes-jugaran-la-edicion-2023-2022127105629
