With AE, things are pretty simple. There is instant movement from one area of the network to the other, so you don't have to situate machines next to each other to deal with latency.
Automation for tritium and deuterium is pretty straight forward. I'm not going to go into overclockers except to say that in the version of GT I am on, it reduces production time to 70% and increases energy usage to 160%. This has changed a bit in various GT versions, so I'm going with the standard recipes. I'm also not going to bother with the EU costs as if you are powering a fusion reactor, you should have plenty of energy generation.
The base time for a tritium cell is 150 seconds. If you need one every 6.4 seconds, take 150 seconds and divide by 6.4 which gives 23.43, or 24 rounded up. So, to create one tritium cell every 6.4 seconds, you need 24 centrifuges producing tritium.
The base time for a deuterium cell is 150 seconds as well, so again 24 centrifuges. This is the final production stage for the fuel to feed the fusion reactor.
To generate the deuterium needed to power the tritium reaction (you need 4 deuterium for each tritium produced), you will need 4 times the number of tritium. If you use the simple number of 24, you will need 96 additional centrifuges creating deuterium to power the tritium reaction. If you use the actual production value for 6.4 tritium/second, you actually end up with only 93.75 (or 94 rounded up) saving two centrifuges.
So, we have 24 centrifuges producing tritium, and 118 (24+94) producing deuterium.
Now, each deuterium cell take 4 hydrogen cell to produce. 118 centrifuges producing deuterium time 4 hydrogen cells needed for each cycle giving 472 hydrogen cells needed every 150 seconds (run time of each centrifuge cycle). The time it takes to create 4 hydrogen cells from water in an industrial electrolyzer is 38 seconds. So, we get just shy of 4 full cycles (3.94) in the electrolyzer for each centrifuge cycle. If you divide the total number of hydrogen needed by the 4 hydrogen cells produced then by 3.94 cycles, it ends up at 29.89 (30 rounded up). Thus, 30 industrial electrolyzers are needed to produce the 472 hydrogen needed to power the other reactions.
Grand totals:
24 Industrial Centrifuges producing tritium
118 Industrial Centrifuges producing deuterium
30 Industrial Electrolyzers producing hydrogen
This will give you one set of tritium/deuterium fuel every 6.4 seconds.
(I don't think I missed up any of the math in this, but you may want to double check.)
There are all kinds of ways you can do the actual automation. You can just use AE import and export buses on each machine, or factorization routers feeding the different machine banks, or any number of alternatives. I'll leave the specifics of how you automate the machines with AE up to you.
Edit: These machine counts should give you a good starting place on setting up space and power for them. With AE, the layout doesn't have to be the most efficient, as long as all the machines are accounted for and connected to the AE network.