Thanks guys, I'll give it a go today.
update: It's a bit buggy, pressing 'Y' to start a new commander doesn't seem to have any effect (I am running in mint) It is very slow on my TT, about 5fps. On my ct60e falcon it runs at about 15fps so a lot more playable, but I need to mess around with it a bit more. When I selected 'enable joystick' the joystick input didn't work, then when I went back to 'enable mouse' I found that the game had disabled the mouse entirely, so I had to reboot.
Falcon ct63e 060 - 256mb ram - phantom bus and dsp accel // Atari TT - Thunder and Storm IDE 64mb ram - SCSI2SD - Lightning VME - USB LAN - Ati Mach64