Select all your units and hotkey them into one group. Run about destroy the allied base. When it's destroyed, you'll be given a number of cores to place. Set the refinery cores first, then the generators. Spread out the generators so they aren't hit by century bombers all in one shot. Don't spread everything else out too much because you need Yuriko Omega to defend. Make a docks core

Send the docks core southeast, hugging the shoreline. Use alt-right click to send it on a path that leaves it out of danger. Wait on it to arrive and build a mainframe core. For your command upgrade, take the final squadron ability. When the proton colliders first appear fire your final squadron at the northwestern of the two. You'll repeat this until it's destroyed. Work on upgrading your docks core to build two Shogun battleships.

Make a decimator core to begin your countdown, and use yuriko to defend from the air as best you can. You'll have to rebuild anything lost to century bombers early on. Sell the nanotech mainframe to gain some cash. Once your ships are out, use them to hit the northeastern of the two proton colliders. In this way, you can destroy both. One will go down to the final squadrons whil the other can be hit easily by shoguns.

Take your mecha bay upgrade and make lots of King Onis. You now need to wait out the countdown to your decimator. Attack when it's finally ready, hitting the power plants to the airbase to the north. There is a small field of them. If you hit them all, the base will have no power making it a cakewalk to destroy. When the airbase is gone you get some free air units to help defend/attac

Keep yuriko and the others mobile to destroy units without straying from your base. If they're still alive, send the shoguns to the bay near your co-commander'base to help defend.

When you have the air base down, consider expanding to the ore mines but don't put too much time into this. Wait on the second countdown and hit the next field of reactors to the far north. When it's down it's much easier to approach the soviet/allied bases.

Keep up the reinforcing cycle and work your way to the Soviet base. Once it's leveled, you will be given some elite units to finish it off. Push for the futuretech HQ and destroy it. You'll now be done with the Empire of the Rising Sun Campaign.