Play One Day will sim all the games for that day. But you don't need to sim each individual game to have control over the lineups. Turn on Commissioner Mode (in the upper left corner of the "Options" dialog in the Tools Menu). This gives you control of every team, and the computer manager won't alter the lineups you set for each team (unless someone is unable to play due to injury).
If you want to set the lineup for each team at the very beginning of the game, with access to head-to-head stats against the opposing pitcher, follow these steps: