The AT transmission in the 4cyl and 6cyl Eclipse only have 4 gears.
There are 3 aspects in upgrading the transmission.
1. Torque converter. In a nutshell you can change your stall rate so the converter engages later so it frees up the engine from bogging down at a lower power level. More info:
Tearstone Performance - 6G7* Pro Series Torque Convertor
2. "Shift kit", As mentioned in my first post and what bitter said you improve the ability for the fluid to flow easier through the hydrobody so that your shift times improve from 6/10th of a second down to 2/10ths of a second.
3. Bullet proofing, it's only necessary if you plan on throwing a lot of power at the tranny. I've yet to hear of a properly maintained tranny failing due to excessive power.
As a supplement, I highly recommend an auxillary transmission cooler that you can pick up at any discount auto store or Ebay if you are going to modify your car or beat on it excessively. Keeping temps down and maintaining your fluid properly extends the life of your tranny leaps and bounds.