It's best to set up TWO real boards. A larger one to play out the games on and for examining the variations, and a smaller one to hold the game position while you are playing out a possible continuation on the larger one.
Example: Use the larger board to follow the game out to a critical point, then copy the position onto the smaller board while you explore the various possible combinations on the larger board. When you feel that you now understand the position, reset the larger board to the position that you have "saved" on the smaller board, and continue playing out the game.
is it best to setup a real board and play the move and learn to understand the explanation? also, there is a lot of variation lines in between the actual game moves played in books....do i have to play every single variation move onto my board as well?