Guitar pedal and effects manufacturer Dunlop recently posted videos about what kind of gear Tool uses. Here they are:
"Ever wonder how these pioneers of progressive metal get their psychedelic sounds and monstrous tones? We take a look at the rigs of both bass player Justin Chancellor and guitarist Adam Jones during their set up at a show in San Francisco. Check out the awesome demo of our Heil Talk Box in the Adam Jones interview. Tool fans and tone chasers prepare for an overload! On Adam Jones' rig we saw: Phase 90, Micro Amp, 535Q Crybaby, Heil Talkbox. On Justin Chancellor's rig we saw: MXR Bass Envelope Filter, MXR Bass Octave Deluxe .Check out the videos below."