Shirley Manson's live gear
Audix OM5
Shirley uses an Audix OM5 mic (special capsule for Samson Wireless).
Jagmaster
During the tours in 1995 and 1996 Shirley was playing a baby blue Fender Jagmaster. She used a Fender twin for her amplifier.
Fender Squire Venus
For the Version 2.0 tour Shirley was playing a Pink Fender Venus. This guitar was a customs shop guitar. It was given to her by Courtney Love. Her amplifier on the Version 2.0 was a Matchless Hurricane.
Ms. Rita
Shirley has several different models of Fender Custom Shop Guitars ranging from Stratocaster to Telecaster. All her guitars are custom built. According to Shirley, Ms. Rita's color is Burnt Amber Diamond Encrusted and according to its creator, it's Amber with gold sparkles.
Bee
For the MTV Campus Invasion tour in 1999 Shirley was playing a Fender Custom Shop baby blue Telecaster possibly named Bee.
Classic Rocker
For the beautifulgarbage tour Shirley was playing a new Fender Custom Shop "Classic Rocker." The guitar has the beautifulgarbage rose logo on it and a Bigsby tremolo on it.

Shirley's microphone - Audix OM5

Jagmaster guitar

Fender Squire Venus guitar

Ms. Rita guitar

Bee guitar

Classic Rocker guitar

Close Up of Audix OM5 mic
Source: Axis All Areas