Best era in music for me. My #1 band of all time will always be the Smashing Pumpkins, even if it's gotten to the point where I want to slam my head into a wall whenever Billy Corgan gives an interview. Other favorites of the grunge/alternative/industrial variety:
STP
Alice in Chains
Soundgarden
Pearl Jam
Nirvana
Nine Inch Nails
Tool
Stabbing Westward (now The Dreaming)
Bush
Filter
Dope
KMFDM (they don't exactly count because they were around way before the 90s but they've had varying lineups over the years)
Rage Against the Machine
Jane's Addiction
Brother Kane
Live
The Verve Pipe
The Cranberries
Butthole Surfers
Counting Crows
Collective Soul
Hole
Garbage
Everclear
Silverchair
Candlebox
Gin Blossoms