Had a look at Reign, cool but a little too low resolution for what I was thinking. I've been peicing together something using GURPS.
So far:
Evil Genius is a 500pt character to start off with.
You create minions using the ally group advantage, but you have to buy equipment directly. Makes the choice between robots with point based weapons and living minions that you have to buy gear for interesting.
Your base is handled entirely by the cost of living rules for simplicity, and you're assumed to have income assets in line with your weath to cover costs, logistic, ect. Evil Industries Steel Foundries has a wonderful Union btw.
Superscience kit is avalible using the normal high TL costing system, which means I can't get power armor and force screens for my Spartans yet...
Vehicles are also paid for out of pocket. Player created vehicles are... a pain in the ass.
So far:
The Professor is a 500pt scientist fed up with the world at large and humanity in general. He's extreamly intellegant but prefers to be thought of as a "Chaotic Nuetral Genius". No one is quite sure what he is after or where he gets his funding (cause I don't care enough to work it out).
He has the Muiltimillionare advatage for a starting wealth of $20mil. Income is $21,000 a month, and he lives at Status 3. His base is a mostly small underground complex on a tiny island in the middle of nowhere, with a short airstrip. It's crewed mostly by the Catgirl Allliance when they aren't deplyed.
Minions:
Ally: Jessica, aka The Director: 3pt single ally with FoA 6 or less, she runs the base rather then doing field work. for 1pt, 375pt char
Ally Group: The Green Line: 1pt group of 100 with minion enhancement and FoA Constantly, these are the rank and file army of the Alliance, intellegant but totally devoted. They obey both the Director and the Professor as long as those orders don't contridict. 72pts, 125pts each
Ally Group: The Ashera: 5pt group of 10 with minion and FoA constantly, these are Spartans, god help you. 180pts, 500pt each
Obviously, this needs work still, beh