Light Switch/Dimmer Question
So if:
1) power goes into 3 way switch
2) switch legs go to other 3 way switch
3) combined switch leg which powers lights now goes into 2 dimmers
4) each dimmer feeds a wire to a different set of lights

It can work.

An easier thing might just be to get a bunch of philips hue bulbs and program and control them with home automation software - with an added benefit of colors!