Hating to compare this to other games (The idea is just to unique to say, 'sort of like'), but I'm assuming it will go down a road similar to C and C 3 or other RTS's that were made for both the 360 and the PC.
C and C 3 there were notable differences. The major one being that it was obviously very difficult to use true "micro" a la Jeremy from Pure Pwnage. The games seem to be slower and set at a lower pace. Now I have no doubts that the design team that is making Dawn of Fantasy will be able to make easy to use controls on the controller, So far the 360 has had a slew of RTS's that have done this well.
It's not my place to say but I do fear that the 360 version will be plagued with some issues.