I keep my dock split into sections with blank spaces.
Always Running:
Finder
Safari
Adium
Mail
Music:
iTunes
Connect 360 Power - automator app to turn Connect 360 on/off
PandoraBoy
Design:
Aperture
Photoshop CS3
Illustrator CS3
Flash CS3
Random Use:
MS Word 2008
Enigmo 2
the rest:
System Preferences
Audio Hijack Pro
School stack
Downloads stack
Trash full
Always Running:
Finder
Safari
Adium
Music:
iTunes
Connect 360 Power - automator app to turn Connect 360 on/off
PandoraBoy
Design:
Aperture
Photoshop CS3
Illustrator CS3
Flash CS3
Random Use:
MS Word 2008
Enigmo 2
the rest:
System Preferences
Audio Hijack Pro
School stack
Downloads stack
Trash full