Like Laz said, top 5 for 17 years is hard. So I divided it into two eras and did a top 10 for each.
ATYCLB/HTDAAB
The Ground Beneath Her Feet
Stateless
Beautiful Day
Walk On
Kite
Wild Honey(I know, you think I'm nuts)
When I Look At The World
Sometimes You Can't Make It On Your Own
A Man And A Woman
Mercy
Honorable mentions: Electrical Storm, Vertigo/Native Son, COBL, Fast Cars, Elevation, Stuck In A Moment
NLOTH/SOI
No Line On The Horizon
Moment Of Surrender
Fez-Being Born
California
Iris
Raised By Wolves
Cedarwood Road
Sleep Like A Baby Tonight
The Troubles
The Crystal Ballroom
Honorable mentions: White As Snow, Winter, The Miracle, EBW, Reach, Invisible
Something like that.