At the very end of mission 5 there is room for one last command, it does not give you the command though. When the command sound beeps, press Up-C 2 times, and instead of the 2 Eva's lying on top of each other, they're both standing, looking at the screen with one hand on their hip.
When you turn the power on, wait for the demo screen of Eva 01 and Sachiel fighting then hold down the L and R buttons on controller 2 then press Start on controller 1. The screen will turn black and two boxes with 1p and 2p will appear on the upper left and right of the screen.
Use the left and right directional buttons to choose from these options:
E00: Eva Unit-00 with Lance of Longinus
E01: Eva Unit-01 with Progressive Knife
E02: Eva Unit-02 with Progressive Knife
E03: Eva Unit-03 with Eva-05 weapon
SAC: Sachiel
SHA: Shamshiel
BAR: Bardiel
E.S: Seele Eva-05 Series-R
RND: Random
Then press the A button on controller 1 to start the battle.
Go to Simulation Mode and start Mission 11. Before the demo animation of Mission 11, hold the Z, R and a C button on Controller 2. If you hold C-down you will get Eva Unit-01, C-right gives you Eva Unit-03, C-left is Unit-02, and C-up will be Eva Unit-00.
Controller 2 will then be given control of the Eva of their choice but Controller 1 will always have control of Unit-01.
At the intro screen after the demo of the Unit 01 battling Sachiel, a screen with the words ''BEC Section 3'' will appear. At this screen enter the code below: