You can do any number of things.
Don't accept the TD's movement suggestion and move players yourself.
Don't accept the TD's initial movement suggestion. Have it make another suggestion.
Move the player(s) currently in the BB and SB to appropriate positions and then let the software suggest how to move the remaining players.
Or, on the Tables tab, set the dealer buttons, then have the TD suggest movement. It will do its best to move players with respect to the buttons.