I've GM'ed 2 Macross RPG's. The first one took place around 2020, and included VF-1, VF-4, and VF-5000. It was based around a Megaroad colony ship looking for a world to settle. The characters ran into an enemy during this journey and had to use diplomacy, fighting and a little bit of singing to get through it. There was a love triangle too. It ran for about a year of about once a week meetings.
The second RPG is on hiatus, and takes place around 2045 on a colony planet. The characters had been dealing with a pirate group who were well armed. That has come to a conclusion and I don't want to say to much about the rest of my plans, as a member here is part of the game. The characters started out in VF-1X's, then to VF-4's, then went into a special ops squad flying VF-11's.
I use the d20 system. Pulling ideas from d20 Star Wars, d20 mecha, and d20 modern. I then came up with some of my own rules to fix some of the problems we ran into during combat.
I do have some ideas to start a Macross Zero based game after this one is over.